Citrus Sinensis ID: 012126

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470
Protein Sequence
MYQRAFLRSSKIVTTVTGAVTFPPKTPSLIFCYSSSSQESPSSPEQQQESSISNSKSPIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIGKTRSRPRRT
Secondary Structure (PSIPRED)
cccccccccccHHccccccccccccccHHHHHHccccccccccccHHHcccccccccccccHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHcHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHccccHHHHccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHHccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHcc
Coil and Loop (DISEMBL)
myqraflrsskivttvtgavtfppktpslifcyssssqespsspeqqqessisnskspigspcrVQKLIASQSDPLLAKEIFDyasrqpnfrhsnSTYLILILKLGRAKYFSLIDDILITLksehypvtpsLFTYLIKIYAESNLPDRALKTFRSMLEfnckplpkQLNRILELLVTHRnylrpafdlfksahkhgvlpntksyNIMMRAFCFNGDISIAYTLFNKMfergvmpdveSYRILMQGLCRKSQVNRAVDLLEDMlnkgfvpdtlSYTTLLNSLCRKKKLREAYKLLCRMKvkgcnpdivhYNTVVLGFCREGRAIDAckvledmpsngclpnlvsyRTLVGGLCDQGMFDVAKKYMQLMIskgfsphfsvSHALIKGFCNVGKVDEACGVLEELLkageaphedtwvmivpqicaGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIgledyligktrsrprrt
Flexible Loop (DISEMBL)
myqraflrsskivttvtgavtfppkTPSLIFCYSSSSQESPSSPEQQQESSISNSKSPIGSPCRVQKLIASQSDPLLAKEIFDYAsrqpnfrhsNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRmkvkgcnpdiVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLkageaphedtwVMIVPQICAGEEMEKLGEVLNEIVKVeikgdtriveagigledyligktrsrprrt
Low Complexity Region (SEG)
MYQRAFLRSSKIVTTVTGAVTFPPKTPSLIFCYssssqespsspeqqqessisnskspigspCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIGKTRSRPRRT
Disordered region (IsUnstruct)
******LRSSKIVTTVTGAVTFPPKTPSLIFCY*****************************************PLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIG*********
Disordered Region (DISOPRED)
***********************PKTPSLIFCY*******************SNSKSPIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIGKTRS*****
Disordered Region (DISEMBL)
MYQRAFLRSSKIVTTVTGAVTFPPKTPSLIFCY****************************PCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIGKTRSRPRRT
Disordered Region (DISPRO)
MYQRAFLRSSKIVTTVTGAVTFPPKTPSLIFCYSSSSQESPSSPEQQQESSISNSKSPIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIGKTRS*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MYQRAFLRSSKIVTTVTGAVTFPPKTPSLIFCYSSSSQESPSSPEQQQESSISNSKSPIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIGKTRSRPRRT
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	470	2.2.26 [Sep-21-2011]
Q8LDU5	466	Pentatricopeptide repeat-	yes	no	0.942	0.950	0.657	1e-176
Q9FNL2	472	Pentatricopeptide repeat-	no	no	0.751	0.747	0.310	1e-53
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.804	0.501	0.290	2e-48
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.831	0.535	0.293	3e-46
Q9SSR6	523	Pentatricopeptide repeat-	no	no	0.882	0.793	0.265	2e-43
Q3E9F0	506	Pentatricopeptide repeat-	no	no	0.802	0.745	0.292	3e-43
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.676	0.425	0.300	3e-43
O49436	660	Pentatricopeptide repeat-	no	no	0.770	0.548	0.289	3e-43
Q9LQQ1	459	Pentatricopeptide repeat-	no	no	0.848	0.869	0.286	9e-43
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.653	0.513	0.317	3e-40

>sp|Q8LDU5|PP298_ARATH Pentatricopeptide repeat-containing protein At4g01400, mitochondrial OS=Arabidopsis thaliana GN=At4g01400 PE=2 SV=2

 Score =  619 bits (1597), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 299/455 (65%), Positives = 361/455 (79%), Gaps = 12/455 (2%)

Query: 20  VTFPPKTPSLIFCYSSSSQESPSSPEQQQESSISNSKSPIGSPCRVQKLIASQSDPLLAK 79
           +T P  T S    YSSS  E+       ++  +SN KSPIGSP RVQKLIASQSDPLLAK
Sbjct: 16  LTSPLSTSSRFLFYSSSEHEA-------RKPIVSNPKSPIGSPTRVQKLIASQSDPLLAK 68

Query: 80  EIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKI 139
           EIFDYAS+QPNFRHS S++LILILKLGR +YF+LIDD+L   +S  YP+T  +FTYLIK+
Sbjct: 69  EIFDYASQQPNFRHSRSSHLILILKLGRGRYFNLIDDVLAKHRSSGYPLTGEIFTYLIKV 128

Query: 140 YAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLP 199
           YAE+ LP++ L TF  MLEFN  P PK LNRIL++LV+HR YL+ AF+LFKS+  HGV+P
Sbjct: 129 YAEAKLPEKVLSTFYKMLEFNFTPQPKHLNRILDVLVSHRGYLQKAFELFKSSRLHGVMP 188

Query: 200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLL 259
           NT+SYN++M+AFC N D+SIAY LF KM ER V+PDV+SY+IL+QG CRK QVN A++LL
Sbjct: 189 NTRSYNLLMQAFCLNDDLSIAYQLFGKMLERDVVPDVDSYKILIQGFCRKGQVNGAMELL 248

Query: 260 EDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCRE 319
           +DMLNKGFVPD LSYTTLLNSLCRK +LREAYKLLCRMK+KGCNPD+VHYNT++LGFCRE
Sbjct: 249 DDMLNKGFVPDRLSYTTLLNSLCRKTQLREAYKLLCRMKLKGCNPDLVHYNTMILGFCRE 308

Query: 320 GRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVS 379
            RA+DA KVL+DM SNGC PN VSYRTL+GGLCDQGMFD  KKY++ MISKGFSPHFSVS
Sbjct: 309 DRAMDARKVLDDMLSNGCSPNSVSYRTLIGGLCDQGMFDEGKKYLEEMISKGFSPHFSVS 368

Query: 380 HALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVK 439
           + L+KGFC+ GKV+EAC V+E ++K GE  H DTW M++P IC  +E EK+   L + VK
Sbjct: 369 NCLVKGFCSFGKVEEACDVVEVVMKNGETLHSDTWEMVIPLICNEDESEKIKLFLEDAVK 428

Query: 440 VEIKGDTRIVEAGIGLEDYLIGKTR-----SRPRR 469
            EI GDTRIV+ GIGL  YL  K +     +R RR
Sbjct: 429 EEITGDTRIVDVGIGLGSYLSSKLQMKRKNARERR 463

Arabidopsis thaliana (taxid: 3702)

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

 Score =  211 bits (536), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 111/357 (31%), Positives = 195/357 (54%), Gaps = 4/357 (1%)

Query: 61  SPCRVQKLIASQSDPLLAKEIFDYASRQ--PNFRHSNSTYLILILKLGRAKYFSLIDDIL 118
           +P +V KL+ ++ D   +  +FD A+ +    + H  S++  ++L+L  A  F   +D++
Sbjct: 15  TPSQVIKLMRAEKDVEKSMAVFDSATAEYANGYVHDQSSFGYMVLRLVSANKFKAAEDLI 74

Query: 119 ITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTH 178
           + +K E+  V+  +   + + Y   + P  +L+ F  M +F+C P  K    +L +LV  
Sbjct: 75  VRMKIENCVVSEDILLSICRGYGRVHRPFDSLRVFHKMKDFDCDPSQKAYVTVLAILV-E 133

Query: 179 RNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFN-GDISIAYTLFNKMFERGVMPDVE 237
            N L  AF  +K+  + G+ P   S N++++A C N G +     +F +M +RG  PD  
Sbjct: 134 ENQLNLAFKFYKNMREIGLPPTVASLNVLIKALCRNDGTVDAGLKIFLEMPKRGCDPDSY 193

Query: 238 SYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRM 297
           +Y  L+ GLCR  +++ A  L  +M+ K   P  ++YT+L+N LC  K + EA + L  M
Sbjct: 194 TYGTLISGLCRFGRIDEAKKLFTEMVEKDCAPTVVTYTSLINGLCGSKNVDEAMRYLEEM 253

Query: 298 KVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMF 357
           K KG  P++  Y++++ G C++GR++ A ++ E M + GC PN+V+Y TL+ GLC +   
Sbjct: 254 KSKGIEPNVFTYSSLMDGLCKDGRSLQAMELFEMMMARGCRPNMVTYTTLITGLCKEQKI 313

Query: 358 DVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTW 414
             A + +  M  +G  P   +   +I GFC + K  EA   L+E++  G  P+  TW
Sbjct: 314 QEAVELLDRMNLQGLKPDAGLYGKVISGFCAISKFREAANFLDEMILGGITPNRLTW 370

Arabidopsis thaliana (taxid: 3702)

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

 Score =  194 bits (492), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 121/417 (29%), Positives = 206/417 (49%), Gaps = 39/417 (9%)

Query: 69  IASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPV 128
           + SQ D   A  +F+ AS++PNF    + Y  ++L+LGR+  F  +  IL  +KS    +
Sbjct: 57  LRSQPDDSAALRLFNLASKKPNFSPEPALYEEILLRLGRSGSFDDMKKILEDMKSSRCEM 116

Query: 129 TPSLFTYLIKIYAESNLPDRALKTFRSML-EFNCKPLPKQLNRILELLVT---------- 177
             S F  LI+ YA+  L D  L     M+ EF  KP     NR+L LLV           
Sbjct: 117 GTSTFLILIESYAQFELQDEILSVVDWMIDEFGLKPDTHFYNRMLNLLVDGNSLKLVEIS 176

Query: 178 ------------------------HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCF 213
                                     + LRPA  + +    +G++P+ K++  +M+ +  
Sbjct: 177 HAKMSVWGIKPDVSTFNVLIKALCRAHQLRPAILMLEDMPSYGLVPDEKTFTTVMQGYIE 236

Query: 214 NGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK-GFVPDTL 272
            GD+  A  +  +M E G      S  +++ G C++ +V  A++ +++M N+ GF PD  
Sbjct: 237 EGDLDGALRIREQMVEFGCSWSNVSVNVIVHGFCKEGRVEDALNFIQEMSNQDGFFPDQY 296

Query: 273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDM 332
           ++ TL+N LC+   ++ A +++  M  +G +PD+  YN+V+ G C+ G   +A +VL+ M
Sbjct: 297 TFNTLVNGLCKAGHVKHAIEIMDVMLQEGYDPDVYTYNSVISGLCKLGEVKEAVEVLDQM 356

Query: 333 PSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKV 392
            +  C PN V+Y TL+  LC +   + A +  +++ SKG  P     ++LI+G C     
Sbjct: 357 ITRDCSPNTVTYNTLISTLCKENQVEEATELARVLTSKGILPDVCTFNSLIQGLCLTRNH 416

Query: 393 DEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIV 449
             A  + EE+   G  P E T+ M++  +C+     KL E LN + ++E+ G  R V
Sbjct: 417 RVAMELFEEMRSKGCEPDEFTYNMLIDSLCSK---GKLDEALNMLKQMELSGCARSV 470

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  186 bits (473), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 127/432 (29%), Positives = 213/432 (49%), Gaps = 41/432 (9%)

Query: 51  SISNSKSPIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKY 110
           S+ NS   I +P ++ KL+    +   + E+F +   Q  +RHS   Y +LI KLG    
Sbjct: 68  SLRNSFHKI-TPFQLYKLLELPLNVSTSMELFSWTGSQNGYRHSFDVYQVLIGKLGANGE 126

Query: 111 FSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLE----FNCKPLPK 166
           F  ID +LI +K E      SLF  +++ Y ++  P    +T R MLE    ++C+P  K
Sbjct: 127 FKTIDRLLIQMKDEGIVFKESLFISIMRDYDKAGFPG---QTTRLMLEMRNVYSCEPTFK 183

Query: 167 QLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNK 226
             N +LE+LV+  N  + A ++F       + P   ++ ++M+AFC   +I  A +L   
Sbjct: 184 SYNVVLEILVSG-NCHKVAANVFYDMLSRKIPPTLFTFGVVMKAFCAVNEIDSALSLLRD 242

Query: 227 MFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKK 286
           M + G +P+   Y+ L+  L + ++VN A+ LLE+M   G VPD  ++  ++  LC+  +
Sbjct: 243 MTKHGCVPNSVIYQTLIHSLSKCNRVNEALQLLEEMFLMGCVPDAETFNDVILGLCKFDR 302

Query: 287 LREAYKLLCRMKVKGCNPD-------------------------------IVHYNTVVLG 315
           + EA K++ RM ++G  PD                               IV +NT++ G
Sbjct: 303 INEAAKMVNRMLIRGFAPDDITYGYLMNGLCKIGRVDAAKDLFYRIPKPEIVIFNTLIHG 362

Query: 316 FCREGRAIDACKVLEDM-PSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSP 374
           F   GR  DA  VL DM  S G +P++ +Y +L+ G   +G+  +A + +  M +KG  P
Sbjct: 363 FVTHGRLDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGCKP 422

Query: 375 HFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVL 434
           +      L+ GFC +GK+DEA  VL E+   G  P+   +  ++   C    + +  E+ 
Sbjct: 423 NVYSYTILVDGFCKLGKIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEAVEIF 482

Query: 435 NEIVKVEIKGDT 446
            E+ +   K D 
Sbjct: 483 REMPRKGCKPDV 494

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SSR6|PPR78_ARATH Pentatricopeptide repeat-containing protein At1g52640, mitochondrial OS=Arabidopsis thaliana GN=At1g52640 PE=2 SV=1

 Score =  177 bits (448), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 125/471 (26%), Positives = 215/471 (45%), Gaps = 56/471 (11%)

Query: 11  KIVTTVTGAVTFPPKTPSLIFCYSSSSQESPSSPEQQQESS--ISNSKSP---------- 58
           + V+++  A+   PK+ S  F   S+    P SP+   E S  +S+ ++P          
Sbjct: 4   RTVSSLVRALYQTPKSQS--FRIFSTLLHDPPSPDLVNEISRVLSDHRNPKDDLEHTLVA 61

Query: 59  ----IGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLI 114
               + S    Q L   ++    A   F +A R P+F HS  +Y IL+  LG +K F+L+
Sbjct: 62  YSPRVSSNLVEQVLKRCKNLGFPAHRFFLWARRIPDFAHSLESYHILVEILGSSKQFALL 121

Query: 115 DDILITLKSEHY-PVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILE 173
            D LI  +  +Y  ++  +F  + + Y+ +NLP  A + F  M+EF  KP    L+++L 
Sbjct: 122 WDFLIEAREYNYFEISSKVFWIVFRAYSRANLPSEACRAFNRMVEFGIKPCVDDLDQLLH 181

Query: 174 LLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMR------------------------ 209
            L   + ++  A + F  A   G++P+ K+Y+I++R                        
Sbjct: 182 SLCD-KKHVNHAQEFFGKAKGFGIVPSAKTYSILVRGWARIRDASGARKVFDEMLERNCV 240

Query: 210 -----------AFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDL 258
                      A C +GD+   Y +F +M   G+ PD  S+ I +   C    V+ A  +
Sbjct: 241 VDLLAYNALLDALCKSGDVDGGYKMFQEMGNLGLKPDAYSFAIFIHAYCDAGDVHSAYKV 300

Query: 259 LEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCR 318
           L+ M     VP+  ++  ++ +LC+ +K+ +AY LL  M  KG NPD   YN+++   C 
Sbjct: 301 LDRMKRYDLVPNVYTFNHIIKTLCKNEKVDDAYLLLDEMIQKGANPDTWTYNSIMAYHCD 360

Query: 319 EGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSV 378
                 A K+L  M    CLP+  +Y  ++  L   G FD A +  + M  + F P  + 
Sbjct: 361 HCEVNRATKLLSRMDRTKCLPDRHTYNMVLKLLIRIGRFDRATEIWEGMSERKFYPTVAT 420

Query: 379 SHALIKGFC-NVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEME 428
              +I G     GK++EAC   E ++  G  P+  T  M+  ++    +M+
Sbjct: 421 YTVMIHGLVRKKGKLEEACRYFEMMIDEGIPPYSTTVEMLRNRLVGWGQMD 471

Arabidopsis thaliana (taxid: 3702)

>sp|Q3E9F0|PP392_ARATH Pentatricopeptide repeat-containing protein At5g18475 OS=Arabidopsis thaliana GN=At5g18475 PE=2 SV=1

 Score =  176 bits (447), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 111/380 (29%), Positives = 197/380 (51%), Gaps = 3/380 (0%)

Query: 53  SNSKSPIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFS 112
           +N K+   S      L+  + DP    +IF+ AS+Q  F H+N+TY +L+  L R K F 
Sbjct: 47  TNPKTKFISHESAVSLMKRERDPQGVLDIFNKASQQKGFNHNNATYSVLLDNLVRHKKFL 106

Query: 113 LIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSM-LEFNCKPLPKQLNRI 171
            +D IL  +K E      SLF  L++ ++ S+L D+ ++ F  + +    KP    ++  
Sbjct: 107 AVDAILHQMKYETCRFQESLFLNLMRHFSRSDLHDKVMEMFNLIQVIARVKPSLNAISTC 166

Query: 172 LELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERG 231
           L LL+           L  + H  G+ PNT  +NI+++  C NGDI+ A+ +  +M   G
Sbjct: 167 LNLLIDSGEVNLSRKLLLYAKHNLGLQPNTCIFNILVKHHCKNGDINFAFLVVEEMKRSG 226

Query: 232 V-MPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK-GFVPDTLSYTTLLNSLCRKKKLRE 289
           +  P+  +Y  LM  L   S+   AV+L EDM++K G  PD +++  ++N  CR  ++  
Sbjct: 227 ISYPNSITYSTLMDCLFAHSRSKEAVELFEDMISKEGISPDPVTFNVMINGFCRAGEVER 286

Query: 290 AYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVG 349
           A K+L  MK  GCNP++ +Y+ ++ GFC+ G+  +A +  +++   G   + V Y TL+ 
Sbjct: 287 AKKILDFMKKNGCNPNVYNYSALMNGFCKVGKIQEAKQTFDEVKKTGLKLDTVGYTTLMN 346

Query: 350 GLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAP 409
             C  G  D A K +  M +          + +++G  + G+ +EA  +L++    G   
Sbjct: 347 CFCRNGETDEAMKLLGEMKASRCRADTLTYNVILRGLSSEGRSEEALQMLDQWGSEGVHL 406

Query: 410 HEDTWVMIVPQICAGEEMEK 429
           ++ ++ +I+  +C   E+EK
Sbjct: 407 NKGSYRIILNALCCNGELEK 426

Arabidopsis thaliana (taxid: 3702)

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

 Score =  176 bits (446), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 106/353 (30%), Positives = 175/353 (49%), Gaps = 35/353 (9%)

Query: 129 TPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDL 188
           T S+F  ++K Y+  +L D+AL            P     N +L+  +  +  +  A ++
Sbjct: 133 TSSVFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRNISFAENV 192

Query: 189 FKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCR 248
           FK   +  V PN  +YNI++R FCF G+I +A TLF+KM  +G +P+V +Y  L+ G C+
Sbjct: 193 FKEMLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYCK 252

Query: 249 KSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVH 308
             +++    LL  M  KG  P+ +SY  ++N LCR+ +++E   +L  M  +G + D V 
Sbjct: 253 LRKIDDGFKLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVT 312

Query: 309 YNTVVLGFCREGRAIDA--------------------------CKV---------LEDMP 333
           YNT++ G+C+EG    A                          CK          L+ M 
Sbjct: 313 YNTLIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMR 372

Query: 334 SNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVD 393
             G  PN  +Y TLV G   +G  + A + ++ M   GFSP     +ALI G C  GK++
Sbjct: 373 VRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKME 432

Query: 394 EACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDT 446
           +A  VLE++ + G +P   ++  ++   C   ++++   V  E+V+  IK DT
Sbjct: 433 DAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDT 485

Arabidopsis thaliana (taxid: 3702)

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

 Score =  176 bits (446), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 106/366 (28%), Positives = 194/366 (53%), Gaps = 4/366 (1%)

Query: 77  LAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYL 136
           +++++F  A +  +F+  +ST   +I     +  F  ++ +L  ++ E+  +    F  +
Sbjct: 59  ISEKMFKSAPKMGSFKLGDSTLSSMIESYANSGDFDSVEKLLSRIRLENRVIIERSFIVV 118

Query: 137 IKIYAESNLPDRALKTFRSML-EFNCKPLPKQLNRILELLVTHRNYLRPA--FD-LFKSA 192
            + Y +++LPD+A+  F  M+ EF CK   K  N +L +++    Y R    +D +  S 
Sbjct: 119 FRAYGKAHLPDKAVDLFHRMVDEFRCKRSVKSFNSVLNVIINEGLYHRGLEFYDYVVNSN 178

Query: 193 HKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQV 252
               + PN  S+N++++A C    +  A  +F  M ER  +PD  +Y  LM GLC++ ++
Sbjct: 179 MNMNISPNGLSFNLVIKALCKLRFVDRAIEVFRGMPERKCLPDGYTYCTLMDGLCKEERI 238

Query: 253 NRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTV 312
           + AV LL++M ++G  P  + Y  L++ LC+K  L    KL+  M +KGC P+ V YNT+
Sbjct: 239 DEAVLLLDEMQSEGCSPSPVIYNVLIDGLCKKGDLTRVTKLVDNMFLKGCVPNEVTYNTL 298

Query: 313 VLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF 372
           + G C +G+   A  +LE M S+ C+PN V+Y TL+ GL  Q     A + +  M  +G+
Sbjct: 299 IHGLCLKGKLDKAVSLLERMVSSKCIPNDVTYGTLINGLVKQRRATDAVRLLSSMEERGY 358

Query: 373 SPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGE 432
             +  +   LI G    GK +EA  +  ++ + G  P+   + ++V  +C   +  +  E
Sbjct: 359 HLNQHIYSVLISGLFKEGKAEEAMSLWRKMAEKGCKPNIVVYSVLVDGLCREGKPNEAKE 418

Query: 433 VLNEIV 438
           +LN ++
Sbjct: 419 ILNRMI 424

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQQ1|PPR20_ARATH Pentatricopeptide repeat-containing protein At1g07740, mitochondrial OS=Arabidopsis thaliana GN=At1g07740 PE=2 SV=1

 Score =  175 bits (443), Expect = 9e-43,   Method: Compositional matrix adjust.
 Identities = 115/402 (28%), Positives = 192/402 (47%), Gaps = 3/402 (0%)

Query: 33  YSSSSQESPSSPEQQQESSISNSKSPIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFR 92
           Y +S  E P+      E +   ++ P      +  L     DP  A  +F +  ++  FR
Sbjct: 21  YHTSRPEKPTKKASSHEPTHKFTRKPWEEVPFLTDL-KEIEDPEEALSLF-HQYQEMGFR 78

Query: 93  HSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKT 152
           H   +Y  LI KL +++ F  +D IL  ++  +     SLF  LI+ Y ++   D+A+  
Sbjct: 79  HDYPSYSSLIYKLAKSRNFDAVDQILRLVRYRNVRCRESLFMGLIQHYGKAGSVDKAIDV 138

Query: 153 FRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFC 212
           F  +  F+C    + LN ++ +LV +   L  A   F  A    + PN+ S+NI+++ F 
Sbjct: 139 FHKITSFDCVRTIQSLNTLINVLVDN-GELEKAKSFFDGAKDMRLRPNSVSFNILIKGFL 197

Query: 213 FNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTL 272
              D   A  +F++M E  V P V +Y  L+  LCR   + +A  LLEDM+ K   P+ +
Sbjct: 198 DKCDWEAACKVFDEMLEMEVQPSVVTYNSLIGFLCRNDDMGKAKSLLEDMIKKRIRPNAV 257

Query: 273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDM 332
           ++  L+  LC K +  EA KL+  M+ +GC P +V+Y  ++    + GR  +A  +L +M
Sbjct: 258 TFGLLMKGLCCKGEYNEAKKLMFDMEYRGCKPGLVNYGILMSDLGKRGRIDEAKLLLGEM 317

Query: 333 PSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKV 392
                 P++V Y  LV  LC +     A + +  M  KG  P+ +    +I GFC +   
Sbjct: 318 KKRRIKPDVVIYNILVNHLCTECRVPEAYRVLTEMQMKGCKPNAATYRMMIDGFCRIEDF 377

Query: 393 DEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVL 434
           D    VL  +L +   P   T+V +V  +  G  ++    VL
Sbjct: 378 DSGLNVLNAMLASRHCPTPATFVCMVAGLIKGGNLDHACFVL 419

Arabidopsis thaliana (taxid: 3702)

>sp|Q3EDF8|PPR28_ARATH Pentatricopeptide repeat-containing protein At1g09900 OS=Arabidopsis thaliana GN=At1g09900 PE=2 SV=1

 Score =  166 bits (421), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 98/309 (31%), Positives = 152/309 (49%), Gaps = 2/309 (0%)

Query: 121 LKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRN 180
           L+ + YP   + +T LI+     +    A+K    M +  C P     N +L   +    
Sbjct: 231 LQRDCYPDVIT-YTILIEATCRDSGVGHAMKLLDEMRDRGCTPDVVTYN-VLVNGICKEG 288

Query: 181 YLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYR 240
            L  A          G  PN  ++NI++R+ C  G    A  L   M  +G  P V ++ 
Sbjct: 289 RLDEAIKFLNDMPSSGCQPNVITHNIILRSMCSTGRWMDAEKLLADMLRKGFSPSVVTFN 348

Query: 241 ILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK 300
           IL+  LCRK  + RA+D+LE M   G  P++LSY  LL+  C++KK+  A + L RM  +
Sbjct: 349 ILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNPLLHGFCKEKKMDRAIEYLERMVSR 408

Query: 301 GCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVA 360
           GC PDIV YNT++   C++G+  DA ++L  + S GC P L++Y T++ GL   G    A
Sbjct: 409 GCYPDIVTYNTMLTALCKDGKVEDAVEILNQLSSKGCSPVLITYNTVIDGLAKAGKTGKA 468

Query: 361 KKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQ 420
            K +  M +K   P      +L+ G    GKVDEA     E  + G  P+  T+  I+  
Sbjct: 469 IKLLDEMRAKDLKPDTITYSSLVGGLSREGKVDEAIKFFHEFERMGIRPNAVTFNSIMLG 528

Query: 421 ICAGEEMEK 429
           +C   + ++
Sbjct: 529 LCKSRQTDR 537

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	470
224130680	475	predicted protein [Populus trichocarpa]	0.982	0.972	0.700	0.0
357512639	451	Pentatricopeptide repeat-containing prot	0.876	0.913	0.765	0.0
147776740	422	hypothetical protein VITISV_027905 [Viti	0.880	0.981	0.734	0.0
3193306	991	contains similarity to Arabidopsis membr	0.921	0.436	0.670	1e-176
449441228	482	PREDICTED: pentatricopeptide repeat-cont	0.874	0.852	0.717	1e-175
238480176	466	uncharacterized protein [Arabidopsis tha	0.942	0.950	0.657	1e-175
297810021	1162	pentatricopeptide repeat-containing prot	0.821	0.332	0.607	1e-148
294461967	486	unknown [Picea sitchensis]	0.780	0.755	0.565	1e-122
255548041	262	pentatricopeptide repeat-containing prot	0.553	0.992	0.739	1e-113
296089012	429	unnamed protein product [Vitis vinifera]	0.753	0.825	0.558	1e-106

>gi|224130680|ref|XP_002320901.1| predicted protein [Populus trichocarpa] gi|222861674|gb|EEE99216.1| predicted protein [Populus trichocarpa]

 Score =  703 bits (1815), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 335/478 (70%), Positives = 401/478 (83%), Gaps = 16/478 (3%)

Query: 3   QRAFLRSSKIVTTVTGAVTFPPKT--------PSLIFCYSSS---SQESPSSPEQQQESS 51
            + FL + KI+   T     PP+T        P  +F YSSS    Q+     E      
Sbjct: 2   HKPFLVTCKILLLTT-----PPRTRTVPILPKPQSLFFYSSSPHHHQQHKRELEPSDSHP 56

Query: 52  ISNSKSPIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYF 111
            +N+KSPIGSP RVQKLIASQSDPLLAKEIFDYASRQPNF+HS S+YLILILKLGRAKYF
Sbjct: 57  NANTKSPIGSPSRVQKLIASQSDPLLAKEIFDYASRQPNFQHSYSSYLILILKLGRAKYF 116

Query: 112 SLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRI 171
           S IDD+L  LKS++YPVTP+LF+Y+I IY E+NLPD+ALK F ++L+F+C P PK LN I
Sbjct: 117 SFIDDLLTDLKSKNYPVTPTLFSYIINIYGEANLPDKALKIFYTILKFDCNPSPKHLNGI 176

Query: 172 LELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERG 231
           LE+LV+H+NY++PAFDLFK AH + V PNTKSYNI++RAFC NG IS+AY+LFN+MF+R 
Sbjct: 177 LEILVSHQNYIKPAFDLFKDAHTYDVFPNTKSYNILIRAFCLNGQISMAYSLFNQMFKRD 236

Query: 232 VMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAY 291
           VMPDVESYRILMQ LCRKSQVN AVDLLEDMLNKG+VPD LSYTTLLNSLCRKKKLREAY
Sbjct: 237 VMPDVESYRILMQALCRKSQVNGAVDLLEDMLNKGYVPDALSYTTLLNSLCRKKKLREAY 296

Query: 292 KLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGL 351
           KLLCRMKVKGCNPDI+HYNTV+LGFCREGRA+DACKVLEDM SNGC+PNLVSYRTLVGGL
Sbjct: 297 KLLCRMKVKGCNPDIIHYNTVILGFCREGRAMDACKVLEDMESNGCMPNLVSYRTLVGGL 356

Query: 352 CDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHE 411
           CDQGMFD AK +++ M+ KGFSPHF+VS+ALIKGFCNVGK++EACGV+EELLK GEAPH 
Sbjct: 357 CDQGMFDEAKSHLEEMMMKGFSPHFAVSNALIKGFCNVGKIEEACGVVEELLKHGEAPHT 416

Query: 412 DTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIGKTRSRPRR 469
           +TWVM+V +IC  ++++++GE+L+++ KVE+KGDTRIVEAGIGLE+YLI +T+ +  R
Sbjct: 417 ETWVMMVSRICEVDDLQRIGEILDKVKKVELKGDTRIVEAGIGLEEYLIKRTQQKAWR 474

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357512639|ref|XP_003626608.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|87240852|gb|ABD32710.1| Tetratricopeptide-like helical [Medicago truncatula] gi|355501623|gb|AES82826.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  661 bits (1705), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 316/413 (76%), Positives = 365/413 (88%), Gaps = 1/413 (0%)

Query: 58  PIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDI 117
           PIGSP RVQKLIASQSDPLLAKEIFDYAS QPNFRH+ STYLILILK GR+K+FSL+DD+
Sbjct: 38  PIGSPTRVQKLIASQSDPLLAKEIFDYASLQPNFRHNYSTYLILILKFGRSKHFSLLDDL 97

Query: 118 LITLKSEH-YPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLV 176
           L  LKSE   P+TP+LF+YLIKIY E+NLPD+AL TF  ML+FN KPL K LNRIL++LV
Sbjct: 98  LRRLKSESSQPITPTLFSYLIKIYGEANLPDKALNTFYIMLQFNIKPLTKHLNRILDILV 157

Query: 177 THRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDV 236
           +HRNYLRPAFDLFK AHKHGV P+TKSYNI+MRAFC NGDISIAYTLFNKMF+R V+PD+
Sbjct: 158 SHRNYLRPAFDLFKDAHKHGVFPDTKSYNILMRAFCLNGDISIAYTLFNKMFKRDVVPDI 217

Query: 237 ESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCR 296
           +SYRILMQ LCRKSQVN AVDL EDMLNKGFVPD+ +YTTLLNSLCRKKKLREAYKLLCR
Sbjct: 218 QSYRILMQALCRKSQVNGAVDLFEDMLNKGFVPDSFTYTTLLNSLCRKKKLREAYKLLCR 277

Query: 297 MKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGM 356
           MKVKGCNPDIVHYNTV+LGFCREGRA DACKV++DM +NGCLPNLVSYRTLV GLC  GM
Sbjct: 278 MKVKGCNPDIVHYNTVILGFCREGRAHDACKVIDDMQANGCLPNLVSYRTLVNGLCHLGM 337

Query: 357 FDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVM 416
            D A KY++ M+SKGFSPHF+V HAL+KGFCNVG+++EACGVL + L+  EAPH+DTW++
Sbjct: 338 LDEATKYVEEMLSKGFSPHFAVIHALVKGFCNVGRIEEACGVLTKSLEHREAPHKDTWMI 397

Query: 417 IVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIGKTRSRPRR 469
           IVPQIC  ++  K+  VL E++K+EIKGDTRIV+AGIGLEDYLI K R++ R+
Sbjct: 398 IVPQICEVDDGVKIDGVLEEVLKIEIKGDTRIVDAGIGLEDYLIRKIRAKSRQ 450

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147776740|emb|CAN72416.1| hypothetical protein VITISV_027905 [Vitis vinifera]

 Score =  653 bits (1685), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 304/414 (73%), Positives = 362/414 (87%)

Query: 57  SPIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDD 116
           SPIGSP RVQKLIASQSDPLLAKEIFD AS QPNF+HS S++ ILILKLG A+ FSL+ D
Sbjct: 9   SPIGSPSRVQKLIASQSDPLLAKEIFDLASLQPNFKHSYSSFHILILKLGWARQFSLMQD 68

Query: 117 ILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLV 176
           +L+ LKSE Y + PSLF+ +I+IY E+NLPD+ALKTF SML+F+ KPLPK LN +L+LLV
Sbjct: 69  LLMRLKSEQYSINPSLFSDIIEIYGEANLPDQALKTFHSMLQFHSKPLPKHLNXLLQLLV 128

Query: 177 THRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDV 236
           +HRNY+RPAFDLFKSAH++GV P+TKSYNI+M AFCFNGD+SIAYTLFN+MF+R V PDV
Sbjct: 129 SHRNYIRPAFDLFKSAHRYGVSPDTKSYNILMSAFCFNGDLSIAYTLFNQMFKRDVAPDV 188

Query: 237 ESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCR 296
           ESYRILMQGLCRKSQVNRAVDLLEDMLNKG+VPD LSYTTLLNSLCRKKKL+EAYKLLCR
Sbjct: 189 ESYRILMQGLCRKSQVNRAVDLLEDMLNKGYVPDALSYTTLLNSLCRKKKLKEAYKLLCR 248

Query: 297 MKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGM 356
           MKVKGCNPDIVHYNTV+LGFCREGR +DACKVLEDMPSNGC PNL+SY TLV GLCDQG+
Sbjct: 249 MKVKGCNPDIVHYNTVILGFCREGRXLDACKVLEDMPSNGCSPNLMSYGTLVSGLCDQGL 308

Query: 357 FDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVM 416
           +D AK Y++ M+SKGFSPHFSV HALI GFCNVGK++EAC VL E+L+ GEA H +TWV 
Sbjct: 309 YDEAKNYVEEMLSKGFSPHFSVFHALINGFCNVGKLEEACEVLXEMLRHGEAXHTETWVA 368

Query: 417 IVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIGKTRSRPRRT 470
           I+P+IC  +++ ++  + +E +K+EI  +TR+VEAGIGLE+Y+I K R + R+ 
Sbjct: 369 IIPRICEVDKLVRMENIFDEXLKLEITPNTRLVEAGIGLEEYVIRKVRDKSRKA 422

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3193306|gb|AAC19289.1| contains similarity to Arabidopsis membrane-associated salt-inducible-like protein (GB:AL021637) [Arabidopsis thaliana]

 Score =  624 bits (1610), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 295/440 (67%), Positives = 355/440 (80%), Gaps = 7/440 (1%)

Query: 20  VTFPPKTPSLIFCYSSSSQESPSSPEQQQESSISNSKSPIGSPCRVQKLIASQSDPLLAK 79
           +T P  T S    YSSS  E+       ++  +SN KSPIGSP RVQKLIASQSDPLLAK
Sbjct: 16  LTSPLSTSSRFLFYSSSEHEA-------RKPIVSNPKSPIGSPTRVQKLIASQSDPLLAK 68

Query: 80  EIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKI 139
           EIFDYAS+QPNFRHS S++LILILKLGR +YF+LIDD+L   +S  YP+T  +FTYLIK+
Sbjct: 69  EIFDYASQQPNFRHSRSSHLILILKLGRGRYFNLIDDVLAKHRSSGYPLTGEIFTYLIKV 128

Query: 140 YAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLP 199
           YAE+ LP++ L TF  MLEFN  P PK LNRIL++LV+HR YL+ AF+LFKS+  HGV+P
Sbjct: 129 YAEAKLPEKVLSTFYKMLEFNFTPQPKHLNRILDVLVSHRGYLQKAFELFKSSRLHGVMP 188

Query: 200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLL 259
           NT+SYN++M+AFC N D+SIAY LF KM ER V+PDV+SY+IL+QG CRK QVN A++LL
Sbjct: 189 NTRSYNLLMQAFCLNDDLSIAYQLFGKMLERDVVPDVDSYKILIQGFCRKGQVNGAMELL 248

Query: 260 EDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCRE 319
           +DMLNKGFVPD LSYTTLLNSLCRK +LREAYKLLCRMK+KGCNPD+VHYNT++LGFCRE
Sbjct: 249 DDMLNKGFVPDRLSYTTLLNSLCRKTQLREAYKLLCRMKLKGCNPDLVHYNTMILGFCRE 308

Query: 320 GRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVS 379
            RA+DA KVL+DM SNGC PN VSYRTL+GGLCDQGMFD  KKY++ MISKGFSPHFSVS
Sbjct: 309 DRAMDARKVLDDMLSNGCSPNSVSYRTLIGGLCDQGMFDEGKKYLEEMISKGFSPHFSVS 368

Query: 380 HALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVK 439
           + L+KGFC+ GKV+EAC V+E ++K GE  H DTW M++P IC  +E EK+   L + VK
Sbjct: 369 NCLVKGFCSFGKVEEACDVVEVVMKNGETLHSDTWEMVIPLICNEDESEKIKLFLEDAVK 428

Query: 440 VEIKGDTRIVEAGIGLEDYL 459
            EI GDTRIV+ GIGL  YL
Sbjct: 429 EEITGDTRIVDVGIGLGSYL 448

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449441228|ref|XP_004138384.1| PREDICTED: pentatricopeptide repeat-containing protein At4g01400, mitochondrial-like [Cucumis sativus] gi|449499186|ref|XP_004160743.1| PREDICTED: pentatricopeptide repeat-containing protein At4g01400, mitochondrial-like [Cucumis sativus]

 Score =  622 bits (1604), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 295/411 (71%), Positives = 355/411 (86%)

Query: 59  IGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDIL 118
           IGSPCRVQKLIASQSDPLLAKEIFDYA RQP+FR S+S+ L+LILKLGR+KYFSLIDD+L
Sbjct: 70  IGSPCRVQKLIASQSDPLLAKEIFDYACRQPHFRPSSSSLLVLILKLGRSKYFSLIDDLL 129

Query: 119 ITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTH 178
           ++ KS  YPVTP+ F+Y+IKIY E++LPD+ALK F +M++F C P  KQLNRILE+LV+H
Sbjct: 130 LSFKSRRYPVTPTAFSYIIKIYGEADLPDKALKVFYTMIDFGCTPSSKQLNRILEILVSH 189

Query: 179 RNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVES 238
           RN++RPAFDLFK+A  HGVLPNTKSYNI++RAFC+NG+ISIAYTLFNKMFER V+PDVE+
Sbjct: 190 RNFIRPAFDLFKNARHHGVLPNTKSYNILIRAFCWNGNISIAYTLFNKMFERNVIPDVET 249

Query: 239 YRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMK 298
           YR LMQGLCRK+QVN AVDLLEDMLNKG++PDTLSY TLLNSLCRKKKLREAYKLLCRMK
Sbjct: 250 YRTLMQGLCRKNQVNGAVDLLEDMLNKGYIPDTLSYATLLNSLCRKKKLREAYKLLCRMK 309

Query: 299 VKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFD 358
           VKGCNPDI HYNTV++GFCREGRA+DACK+LEDM SNGCLPNLVSY +L  GLCDQGMF+
Sbjct: 310 VKGCNPDIAHYNTVIMGFCREGRALDACKILEDMQSNGCLPNLVSYESLTNGLCDQGMFE 369

Query: 359 VAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIV 418
           +AK Y++ M  KGF PHFSV HAL+KGF ++G++ E+C VLE++LK G+APH DTW +I+
Sbjct: 370 LAKGYVEEMTLKGFYPHFSVIHALVKGFHSIGRIHESCSVLEDMLKRGKAPHSDTWEIII 429

Query: 419 PQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIGKTRSRPRR 469
             IC  E+  K  EV  +I+K +++ DTRIVEAG GL +YLI K ++   R
Sbjct: 430 SGICEVEDTAKFCEVWEKILKKDVRRDTRIVEAGTGLGEYLIRKLQASISR 480

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|238480176|ref|NP_001154199.1| uncharacterized protein [Arabidopsis thaliana] gi|223635643|sp|Q8LDU5.2|PP298_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g01400, mitochondrial; Flags: Precursor gi|332656621|gb|AEE82021.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  619 bits (1597), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 299/455 (65%), Positives = 361/455 (79%), Gaps = 12/455 (2%)

Query: 20  VTFPPKTPSLIFCYSSSSQESPSSPEQQQESSISNSKSPIGSPCRVQKLIASQSDPLLAK 79
           +T P  T S    YSSS  E+       ++  +SN KSPIGSP RVQKLIASQSDPLLAK
Sbjct: 16  LTSPLSTSSRFLFYSSSEHEA-------RKPIVSNPKSPIGSPTRVQKLIASQSDPLLAK 68

Query: 80  EIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKI 139
           EIFDYAS+QPNFRHS S++LILILKLGR +YF+LIDD+L   +S  YP+T  +FTYLIK+
Sbjct: 69  EIFDYASQQPNFRHSRSSHLILILKLGRGRYFNLIDDVLAKHRSSGYPLTGEIFTYLIKV 128

Query: 140 YAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLP 199
           YAE+ LP++ L TF  MLEFN  P PK LNRIL++LV+HR YL+ AF+LFKS+  HGV+P
Sbjct: 129 YAEAKLPEKVLSTFYKMLEFNFTPQPKHLNRILDVLVSHRGYLQKAFELFKSSRLHGVMP 188

Query: 200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLL 259
           NT+SYN++M+AFC N D+SIAY LF KM ER V+PDV+SY+IL+QG CRK QVN A++LL
Sbjct: 189 NTRSYNLLMQAFCLNDDLSIAYQLFGKMLERDVVPDVDSYKILIQGFCRKGQVNGAMELL 248

Query: 260 EDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCRE 319
           +DMLNKGFVPD LSYTTLLNSLCRK +LREAYKLLCRMK+KGCNPD+VHYNT++LGFCRE
Sbjct: 249 DDMLNKGFVPDRLSYTTLLNSLCRKTQLREAYKLLCRMKLKGCNPDLVHYNTMILGFCRE 308

Query: 320 GRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVS 379
            RA+DA KVL+DM SNGC PN VSYRTL+GGLCDQGMFD  KKY++ MISKGFSPHFSVS
Sbjct: 309 DRAMDARKVLDDMLSNGCSPNSVSYRTLIGGLCDQGMFDEGKKYLEEMISKGFSPHFSVS 368

Query: 380 HALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVK 439
           + L+KGFC+ GKV+EAC V+E ++K GE  H DTW M++P IC  +E EK+   L + VK
Sbjct: 369 NCLVKGFCSFGKVEEACDVVEVVMKNGETLHSDTWEMVIPLICNEDESEKIKLFLEDAVK 428

Query: 440 VEIKGDTRIVEAGIGLEDYLIGKTR-----SRPRR 469
            EI GDTRIV+ GIGL  YL  K +     +R RR
Sbjct: 429 EEITGDTRIVDVGIGLGSYLSSKLQMKRKNARERR 463

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297810021|ref|XP_002872894.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297318731|gb|EFH49153.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  530 bits (1365), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 259/426 (60%), Positives = 311/426 (73%), Gaps = 40/426 (9%)

Query: 37  SQESPSSPEQQQESSISNSKSPIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNS 96
           S+     P+     S  + KSPIGSP RVQKLIASQSDPLLAKEIFDYAS+QPNFRHS S
Sbjct: 28  SEHKAGEPKASALVSNPSPKSPIGSPTRVQKLIASQSDPLLAKEIFDYASQQPNFRHSQS 87

Query: 97  TYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSM 156
           +YLILILKLGRA+YF+LIDD+L   +S  YP+T  +FTYLIK+YAE+ +P++ L+TF  M
Sbjct: 88  SYLILILKLGRARYFNLIDDVLAKHRSSGYPLTGEIFTYLIKVYAEAKIPEKVLRTFYKM 147

Query: 157 LEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGD 216
           LEFN  P PK LNRILE+LV+HR YL+ AF+LFKS+  HGV+PNT+SYNI+M+AFC N D
Sbjct: 148 LEFNFTPQPKHLNRILEVLVSHRGYLQKAFELFKSSRLHGVMPNTRSYNILMQAFCLNDD 207

Query: 217 ISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTT 276
           +SIAY LF KM ER V+PDVESY+IL++G CRK QVN A++LLEDMLNKGFVPD LS   
Sbjct: 208 LSIAYQLFGKMLERDVVPDVESYKILIKGFCRKGQVNGAMELLEDMLNKGFVPDRLS--- 264

Query: 277 LLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNG 336
                                    CNPD+VHYNT++LGFCRE RA+DA KVL+DM    
Sbjct: 265 -------------------------CNPDLVHYNTIILGFCREDRAMDARKVLDDM---- 295

Query: 337 CLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEAC 396
                    TL+GGLCDQGMFD  KKY+Q MISKGFSPHFSVS+ L+KGFC+ GKV+EAC
Sbjct: 296 --------LTLIGGLCDQGMFDEGKKYLQEMISKGFSPHFSVSNCLVKGFCSFGKVEEAC 347

Query: 397 GVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLE 456
            V+E ++K GE  H DTW MI+P IC  +E EK+   L + VK EI GDTRIV+ GIGL 
Sbjct: 348 DVVEVVMKNGEILHSDTWEMIIPLICKEDESEKIKRFLEDAVKEEITGDTRIVDVGIGLG 407

Query: 457 DYLIGK 462
            YL  K
Sbjct: 408 SYLSSK 413

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|294461967|gb|ADE76539.1| unknown [Picea sitchensis]

 Score =  444 bits (1141), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 208/368 (56%), Positives = 270/368 (73%), Gaps = 1/368 (0%)

Query: 61  SPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILIT 120
           +P RV KLIASQ+D LLA EIF+ ASRQP F+HS STY  LI KLGRA+ F  ++ ++  
Sbjct: 99  TPARVHKLIASQTDALLAMEIFEVASRQPGFKHSYSTYHTLICKLGRARQFKTMEGLIQQ 158

Query: 121 LKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRN 180
           ++ +  P TP LF  +I+IY E  +P+ A+K F  MLEF  +PL K  N +L +L+ H+ 
Sbjct: 159 MRKDGCPYTPGLFVDIIEIYGEVGMPNEAIKAFHQMLEFGYEPLAKHFNVLLIVLIEHK- 217

Query: 181 YLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYR 240
            L  A  LFK  H+ G+ PNT++YNI++RA C +  +S AY LFNKM ++G +PDVE+Y 
Sbjct: 218 CLETALSLFKKLHEFGISPNTRTYNILIRAHCHSDKLSHAYFLFNKMHKQGCIPDVETYS 277

Query: 241 ILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK 300
           ILMQGLCRKSQV  A+ +L++MLNKG+VPD L+Y TLLNSLCRK  LREAY+LL +MKV 
Sbjct: 278 ILMQGLCRKSQVKTALGVLDEMLNKGYVPDALTYNTLLNSLCRKMNLREAYRLLSKMKVM 337

Query: 301 GCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVA 360
           GCNPD+++YNTV+ GFCREGRA+DAC++L DMP NGCLPN +SYRTLV GLC++G FD A
Sbjct: 338 GCNPDVINYNTVITGFCREGRALDACQILRDMPENGCLPNALSYRTLVNGLCNEGKFDEA 397

Query: 361 KKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQ 420
           K +++ MIS GF PH S+ H LI G CN GKV EAC VL  + K   APHE TW +++ +
Sbjct: 398 KDFVEEMISNGFIPHISIYHLLITGLCNEGKVGEACEVLVMMTKQTLAPHESTWSVLLMR 457

Query: 421 ICAGEEME 428
           IC   + E
Sbjct: 458 ICEDSQTE 465

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255548041|ref|XP_002515077.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223545557|gb|EEF47061.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  415 bits (1067), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 193/261 (73%), Positives = 226/261 (86%)

Query: 208 MRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGF 267
           MRA C  G++S+AY LFN+MF+R V+PD+ESYRILMQGLCR+SQVN AV LLEDMLNKGF
Sbjct: 1   MRALCLTGELSVAYKLFNQMFKRDVLPDIESYRILMQGLCRRSQVNGAVGLLEDMLNKGF 60

Query: 268 VPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACK 327
           VPD L+YTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNT++ GFCREGRA+DA K
Sbjct: 61  VPDCLTYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTIISGFCREGRAMDARK 120

Query: 328 VLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFC 387
           VL DM  NGCLPNLVSYRTLV G+CDQGMFD AK Y++ MI KGFSPHFSVSHAL+KGFC
Sbjct: 121 VLGDMECNGCLPNLVSYRTLVAGICDQGMFDEAKSYLEEMILKGFSPHFSVSHALVKGFC 180

Query: 388 NVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTR 447
            VGK++EACGV+E LLK GE PH DTW++I+P+IC  +++E + + L++ + VEI GDTR
Sbjct: 181 IVGKIEEACGVVEVLLKHGEVPHADTWIIILPRICEVDDLEGIRQSLDKAMMVEIMGDTR 240

Query: 448 IVEAGIGLEDYLIGKTRSRPR 468
           IVEAGIGLEDYLI K + + R
Sbjct: 241 IVEAGIGLEDYLIKKAQPKWR 261

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089012|emb|CBI38715.3| unnamed protein product [Vitis vinifera]

 Score =  393 bits (1009), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 205/367 (55%), Positives = 260/367 (70%), Gaps = 13/367 (3%)

Query: 3   QRAFLRSSKIVTTVTGAVTFPPKTPSLIFCYSSSSQESPSSPEQQQESSISNSKSPIGSP 62
            R  L S +        +   P+TP     YSSS+ +      +Q+        SPIGSP
Sbjct: 4   HRVLLHSYRTAMAAPFHLVLLPRTPWRTL-YSSSTHQQQQHQHKQEPHV---KPSPIGSP 59

Query: 63  CRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLK 122
            RVQKLIASQSDPLLAKEIFD AS QPNF+HS S++ ILILKLG A+ FSL+ D+L+ LK
Sbjct: 60  SRVQKLIASQSDPLLAKEIFDLASLQPNFKHSYSSFHILILKLGWARQFSLMQDLLMRLK 119

Query: 123 SEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYL 182
           SE Y + PSLF+ +I+IY E+NLPD+ALKTF SML+F+ KPLPK LNR+L+LLV+HRNY+
Sbjct: 120 SEQYSINPSLFSDIIEIYGEANLPDQALKTFHSMLQFHSKPLPKHLNRLLQLLVSHRNYI 179

Query: 183 RPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRIL 242
           RPAFDLFKSAH++GV P+TKSYNI+M AFCFNGD+SIAYTLFN+MF+R V PDVESYRIL
Sbjct: 180 RPAFDLFKSAHRYGVSPDTKSYNILMSAFCFNGDLSIAYTLFNQMFKRDVAPDVESYRIL 239

Query: 243 MQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGC 302
           MQGLCRKSQVNRAVDLLEDMLNKG+VPD LSYTT    LC +    EA   +  M  KG 
Sbjct: 240 MQGLCRKSQVNRAVDLLEDMLNKGYVPDALSYTTF--GLCDQGLYDEAKNYVEEMLSKGF 297

Query: 303 NPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCD-------QG 355
           +     ++ ++ GFC  G+  +AC+VL +M  +G  P+  ++  ++  +C+       + 
Sbjct: 298 SLHFSVFHALINGFCNVGKLEEACEVLREMLRHGEAPHTETWVAIIPRICEVDKLVRMEN 357

Query: 356 MFDVAKK 362
           +FD A K
Sbjct: 358 IFDEALK 364

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	470
TAIR|locus:2125152	1110	AT4G01400 "AT4G01400" [Arabido	0.634	0.268	0.559	3.3e-86
TAIR|locus:2161408	472	AT5G46100 "AT5G46100" [Arabido	0.744	0.741	0.313	3.1e-51
TAIR|locus:2119747	660	EMB1025 "embryo defective 1025	0.770	0.548	0.286	2.4e-44
TAIR|locus:1006230454	506	AT5G18475 "AT5G18475" [Arabido	0.782	0.727	0.293	2.8e-43
TAIR|locus:2026560	459	AT1G07740 "AT1G07740" [Arabido	0.774	0.793	0.297	2.5e-42
TAIR|locus:2173403	730	AT5G64320 "AT5G64320" [Arabido	0.802	0.516	0.295	1.5e-41
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.731	0.460	0.308	4.7e-41
TAIR|locus:2009620	471	AT1G53330 [Arabidopsis thalian	0.791	0.789	0.289	1.6e-40
TAIR|locus:2116372	521	AT4G26680 "AT4G26680" [Arabido	0.680	0.614	0.277	4.6e-40
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.738	0.580	0.306	1.1e-39

TAIR|locus:2125152 AT4G01400 "AT4G01400" [Arabidopsis thaliana (taxid:3702)]

 Score = 862 (308.5 bits), Expect = 3.3e-86, P = 3.3e-86
 Identities = 169/302 (55%), Positives = 221/302 (73%)

Query:    64 RVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKS 123
             RVQKLIASQSDPLLAKEIFDYAS+QPNFRHS S++LILILKLGR +YF+LIDD+L   +S
Sbjct:    53 RVQKLIASQSDPLLAKEIFDYASQQPNFRHSRSSHLILILKLGRGRYFNLIDDVLAKHRS 112

Query:   124 EHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLR 183
               YP+T  +FTYLIK+YAE+ LP++ L TF  MLEFN  P PK LNRIL++LV+HR YL+
Sbjct:   113 SGYPLTGEIFTYLIKVYAEAKLPEKVLSTFYKMLEFNFTPQPKHLNRILDVLVSHRGYLQ 172

Query:   184 PAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILM 243
              AF+LFKS+  HGV+PNT+SYN++M+AFC N D+SIAY LF KM ER V+PDV+SY+IL+
Sbjct:   173 KAFELFKSSRLHGVMPNTRSYNLLMQAFCLNDDLSIAYQLFGKMLERDVVPDVDSYKILI 232

Query:   244 QGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCN 303
             QG CRK QVN A++LL+DMLNKGFVPD     TL+  LC +    E  K L  M  KG +
Sbjct:   233 QGFCRKGQVNGAMELLDDMLNKGFVPDR----TLIGGLCDQGMFDEGKKYLEEMISKGFS 288

Query:   304 PDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKY 363
             P     N +V GFC  G+  +AC V+E +  NG   +  ++  ++  +C++   +  K +
Sbjct:   289 PHFSVSNCLVKGFCSFGKVEEACDVVEVVMKNGETLHSDTWEMVIPLICNEDESEKIKLF 348

Query:   364 MQ 365
             ++
Sbjct:   349 LE 350

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005829 "cytosol" evidence=IDA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0048193 "Golgi vesicle transport" evidence=RCA

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

 Score = 532 (192.3 bits), Expect = 3.1e-51, P = 3.1e-51
 Identities = 111/354 (31%), Positives = 194/354 (54%)

Query:    64 RVQKLIASQSDPLLAKEIFDYASRQ-PN-FRHSNSTYLILILKLGRAKYFSLIDDILITL 121
             +V KL+ ++ D   +  +FD A+ +  N + H  S++  ++L+L  A  F   +D+++ +
Sbjct:    18 QVIKLMRAEKDVEKSMAVFDSATAEYANGYVHDQSSFGYMVLRLVSANKFKAAEDLIVRM 77

Query:   122 KSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNY 181
             K E+  V+  +   + + Y   + P  +L+ F  M +F+C P  K    +L +LV   N 
Sbjct:    78 KIENCVVSEDILLSICRGYGRVHRPFDSLRVFHKMKDFDCDPSQKAYVTVLAILV-EENQ 136

Query:   182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFN-GDISIAYTLFNKMFERGVMPDVESYR 240
             L  AF  +K+  + G+ P   S N++++A C N G +     +F +M +RG  PD  +Y 
Sbjct:   137 LNLAFKFYKNMREIGLPPTVASLNVLIKALCRNDGTVDAGLKIFLEMPKRGCDPDSYTYG 196

Query:   241 ILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK 300
              L+ GLCR  +++ A  L  +M+ K   P  ++YT+L+N LC  K + EA + L  MK K
Sbjct:   197 TLISGLCRFGRIDEAKKLFTEMVEKDCAPTVVTYTSLINGLCGSKNVDEAMRYLEEMKSK 256

Query:   301 GCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVA 360
             G  P++  Y++++ G C++GR++ A ++ E M + GC PN+V+Y TL+ GLC +     A
Sbjct:   257 GIEPNVFTYSSLMDGLCKDGRSLQAMELFEMMMARGCRPNMVTYTTLITGLCKEQKIQEA 316

Query:   361 KKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTW 414
              + +  M  +G  P   +   +I GFC + K  EA   L+E++  G  P+  TW
Sbjct:   317 VELLDRMNLQGLKPDAGLYGKVISGFCAISKFREAANFLDEMILGGITPNRLTW 370

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 467 (169.5 bits), Expect = 2.4e-44, P = 2.4e-44
 Identities = 105/366 (28%), Positives = 196/366 (53%)

Query:    77 LAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYL 136
             +++++F  A +  +F+  +ST   +I     +  F  ++ +L  ++ E+  +    F  +
Sbjct:    59 ISEKMFKSAPKMGSFKLGDSTLSSMIESYANSGDFDSVEKLLSRIRLENRVIIERSFIVV 118

Query:   137 IKIYAESNLPDRALKTFRSML-EFNCKPLPKQLNRILELLVTHRNYLRPA--FDLFKSAH 193
              + Y +++LPD+A+  F  M+ EF CK   K  N +L +++    Y R    +D   +++
Sbjct:   119 FRAYGKAHLPDKAVDLFHRMVDEFRCKRSVKSFNSVLNVIINEGLYHRGLEFYDYVVNSN 178

Query:   194 KH-GVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQV 252
              +  + PN  S+N++++A C    +  A  +F  M ER  +PD  +Y  LM GLC++ ++
Sbjct:   179 MNMNISPNGLSFNLVIKALCKLRFVDRAIEVFRGMPERKCLPDGYTYCTLMDGLCKEERI 238

Query:   253 NRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTV 312
             + AV LL++M ++G  P  + Y  L++ LC+K  L    KL+  M +KGC P+ V YNT+
Sbjct:   239 DEAVLLLDEMQSEGCSPSPVIYNVLIDGLCKKGDLTRVTKLVDNMFLKGCVPNEVTYNTL 298

Query:   313 VLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF 372
             + G C +G+   A  +LE M S+ C+PN V+Y TL+ GL  Q     A + +  M  +G+
Sbjct:   299 IHGLCLKGKLDKAVSLLERMVSSKCIPNDVTYGTLINGLVKQRRATDAVRLLSSMEERGY 358

Query:   373 SPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGE 432
               +  +   LI G    GK +EA  +  ++ + G  P+   + ++V  +C   +  +  E
Sbjct:   359 HLNQHIYSVLISGLFKEGKAEEAMSLWRKMAEKGCKPNIVVYSVLVDGLCREGKPNEAKE 418

Query:   433 VLNEIV 438
             +LN ++
Sbjct:   419 ILNRMI 424

GO:0005739 "mitochondrion" evidence=ISM

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

TAIR|locus:1006230454 AT5G18475 "AT5G18475" [Arabidopsis thaliana (taxid:3702)]

 Score = 457 (165.9 bits), Expect = 2.8e-43, P = 2.8e-43
 Identities = 109/371 (29%), Positives = 194/371 (52%)

Query:    68 LIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYP 127
             L+  + DP    +IF+ AS+Q  F H+N+TY +L+  L R K F  +D IL  +K E   
Sbjct:    62 LMKRERDPQGVLDIFNKASQQKGFNHNNATYSVLLDNLVRHKKFLAVDAILHQMKYETCR 121

Query:   128 VTPSLFTYLIKIYAESNLPDRALKTFRSMLEF-NCKPLPKQLNRILELLVTHRNYLRPAF 186
                SLF  L++ ++ S+L D+ ++ F  +      KP    ++  L LL+          
Sbjct:   122 FQESLFLNLMRHFSRSDLHDKVMEMFNLIQVIARVKPSLNAISTCLNLLIDSGEVNLSRK 181

Query:   187 DLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVM-PDVESYRILMQG 245
              L  + H  G+ PNT  +NI+++  C NGDI+ A+ +  +M   G+  P+  +Y  LM  
Sbjct:   182 LLLYAKHNLGLQPNTCIFNILVKHHCKNGDINFAFLVVEEMKRSGISYPNSITYSTLMDC 241

Query:   246 LCRKSQVNRAVDLLEDMLNK-GFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNP 304
             L   S+   AV+L EDM++K G  PD +++  ++N  CR  ++  A K+L  MK  GCNP
Sbjct:   242 LFAHSRSKEAVELFEDMISKEGISPDPVTFNVMINGFCRAGEVERAKKILDFMKKNGCNP 301

Query:   305 DIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYM 364
             ++ +Y+ ++ GFC+ G+  +A +  +++   G   + V Y TL+   C  G  D A K +
Sbjct:   302 NVYNYSALMNGFCKVGKIQEAKQTFDEVKKTGLKLDTVGYTTLMNCFCRNGETDEAMKLL 361

Query:   365 QLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAG 424
               M +          + +++G  + G+ +EA  +L++    G   ++ ++ +I+  +C  
Sbjct:   362 GEMKASRCRADTLTYNVILRGLSSEGRSEEALQMLDQWGSEGVHLNKGSYRIILNALCCN 421

Query:   425 EEMEKLGEVLN 435
              E+EK  + L+
Sbjct:   422 GELEKAVKFLS 432

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2026560 AT1G07740 "AT1G07740" [Arabidopsis thaliana (taxid:3702)]

 Score = 448 (162.8 bits), Expect = 2.5e-42, P = 2.5e-42
 Identities = 109/366 (29%), Positives = 181/366 (49%)

Query:    74 DPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLF 133
             DP  A  +F +  ++  FRH   +Y  LI KL +++ F  +D IL  ++  +     SLF
Sbjct:    61 DPEEALSLF-HQYQEMGFRHDYPSYSSLIYKLAKSRNFDAVDQILRLVRYRNVRCRESLF 119

Query:   134 TYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAH 193
               LI+ Y ++   D+A+  F  +  F+C    + LN ++ +LV +   L  A   F  A 
Sbjct:   120 MGLIQHYGKAGSVDKAIDVFHKITSFDCVRTIQSLNTLINVLVDNGE-LEKAKSFFDGAK 178

Query:   194 KHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVN 253
                + PN+ S+NI+++ F    D   A  +F++M E  V P V +Y  L+  LCR   + 
Sbjct:   179 DMRLRPNSVSFNILIKGFLDKCDWEAACKVFDEMLEMEVQPSVVTYNSLIGFLCRNDDMG 238

Query:   254 RAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVV 313
             +A  LLEDM+ K   P+ +++  L+  LC K +  EA KL+  M+ +GC P +V+Y  ++
Sbjct:   239 KAKSLLEDMIKKRIRPNAVTFGLLMKGLCCKGEYNEAKKLMFDMEYRGCKPGLVNYGILM 298

Query:   314 LGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFS 373
                 + GR  +A  +L +M      P++V Y  LV  LC +     A + +  M  KG  
Sbjct:   299 SDLGKRGRIDEAKLLLGEMKKRRIKPDVVIYNILVNHLCTECRVPEAYRVLTEMQMKGCK 358

Query:   374 PHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEV 433
             P+ +    +I GFC +   D    VL  +L +   P   T+V +V  +  G  ++    V
Sbjct:   359 PNAATYRMMIDGFCRIEDFDSGLNVLNAMLASRHCPTPATFVCMVAGLIKGGNLDHACFV 418

Query:   434 LNEIVK 439
             L  + K
Sbjct:   419 LEVMGK 424

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 446 (162.1 bits), Expect = 1.5e-41, P = 1.5e-41
 Identities = 114/386 (29%), Positives = 198/386 (51%)

Query:    64 RVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKS 123
             ++ KL+    +   + E+F +   Q  +RHS   Y +LI KLG    F  ID +LI +K 
Sbjct:    80 QLYKLLELPLNVSTSMELFSWTGSQNGYRHSFDVYQVLIGKLGANGEFKTIDRLLIQMKD 139

Query:   124 EHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLE-FNCKPLPKQLNRILELLVTHRNYL 182
             E      SLF  +++ Y ++  P +  +    M   ++C+P  K  N +LE+LV+  N  
Sbjct:   140 EGIVFKESLFISIMRDYDKAGFPGQTTRLMLEMRNVYSCEPTFKSYNVVLEILVSG-NCH 198

Query:   183 RPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRIL 242
             + A ++F       + P   ++ ++M+AFC   +I  A +L   M + G +P+   Y+ L
Sbjct:   199 KVAANVFYDMLSRKIPPTLFTFGVVMKAFCAVNEIDSALSLLRDMTKHGCVPNSVIYQTL 258

Query:   243 MQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGC 302
             +  L + ++VN A+ LLE+M   G VPD  ++  ++  LC+  ++ EA K++ RM ++G 
Sbjct:   259 IHSLSKCNRVNEALQLLEEMFLMGCVPDAETFNDVILGLCKFDRINEAAKMVNRMLIRGF 318

Query:   303 NPDIVHYNTVVLGFCREGRAIDACKVL-EDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAK 361
              PD + Y  ++ G C+ GR +DA K L   +P     P +V + TL+ G    G  D AK
Sbjct:   319 APDDITYGYLMNGLCKIGR-VDAAKDLFYRIPK----PEIVIFNTLIHGFVTHGRLDDAK 373

Query:   362 KYMQLMI-SKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQ 420
               +  M+ S G  P     ++LI G+   G V  A  VL ++   G  P+  ++ ++V  
Sbjct:   374 AVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGCKPNVYSYTILVDG 433

Query:   421 ICAGEEMEKLGEVLNEIVKVEIKGDT 446
              C   ++++   VLNE+    +K +T
Sbjct:   434 FCKLGKIDEAYNVLNEMSADGLKPNT 459

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 442 (160.7 bits), Expect = 4.7e-41, P = 4.7e-41
 Identities = 109/353 (30%), Positives = 177/353 (50%)

Query:    97 TYLILILKLGRAKYFSLIDDILITL--KSEHYPVTPSLFTY--LIKIYAESNLPDRALKT 152
             TY ILI    R   F+   D+ +TL  K E     P++ TY  LI  Y +    D   K 
Sbjct:   207 TYNILI----RGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDGFKL 262

Query:   153 FRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFC 212
              RSM     +P     N ++  L         +F L +  ++ G   +  +YN +++ +C
Sbjct:   263 LRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEM-NRRGYSLDEVTYNTLIKGYC 321

Query:   213 FNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTL 272
               G+   A  +  +M   G+ P V +Y  L+  +C+   +NRA++ L+ M  +G  P+  
Sbjct:   322 KEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNER 381

Query:   273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDM 332
             +YTTL++   +K  + EAY++L  M   G +P +V YN ++ G C  G+  DA  VLEDM
Sbjct:   382 TYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLEDM 441

Query:   333 PSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKV 392
                G  P++VSY T++ G C     D A +  + M+ KG  P      +LI+GFC   + 
Sbjct:   442 KEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQGFCEQRRT 501

Query:   393 DEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGD 445
              EAC + EE+L+ G  P E T+  ++   C   ++EK  ++ NE+V+  +  D
Sbjct:   502 KEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMVEKGVLPD 554

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

TAIR|locus:2009620 AT1G53330 [Arabidopsis thaliana (taxid:3702)]

 Score = 431 (156.8 bits), Expect = 1.6e-40, P = 1.6e-40
 Identities = 111/383 (28%), Positives = 194/383 (50%)

Query:    64 RVQKLIASQSDPLLAKEIF---DYASRQPN--FRHSNSTYLILILKLGRAKYFSLIDDIL 118
             R+  L+  ++DP  A ++F   D  S  P   FR+S   Y I+I KLG +K F  +D +L
Sbjct:    11 RLASLLRRENDPSAAMKLFRNPDPESTNPKRPFRYSLLCYDIIITKLGGSKMFDELDQVL 70

Query:   119 ITLKSEHYPV-TPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVT 177
             + LK++   V T  +F  +I  +    LP RAL  F  M ++ C+   K LN +L  L+ 
Sbjct:    71 LHLKTDTRIVPTEIIFCNVINFFGRGKLPSRALHMFDEMPQYRCQRTVKSLNSLLSALLK 130

Query:   178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVE 237
                 L    +   S  + G  P+  +YNI++     +G    A  LF++M ++ V P   
Sbjct:   131 CGE-LEKMKERLSSIDEFGK-PDACTYNILIHGCSQSGCFDDALKLFDEMVKKKVKPTGV 188

Query:   238 SYRILMQGLCRKSQVNRAVDLLEDMLNK-GFVPDTLSYTTLLNSLCRKKKLREAYKLLCR 296
             ++  L+ GLC+ S+V  A+ +  DML   G  P    Y +L+ +LC+  +L  A+KL   
Sbjct:   189 TFGTLIHGLCKDSRVKEALKMKHDMLKVYGVRPTVHIYASLIKALCQIGELSFAFKLKDE 248

Query:   297 MKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGM 356
                     D   Y+T++    + GR+ +   +LE+M   GC P+ V+Y  L+ G C +  
Sbjct:   249 AYEGKIKVDAAIYSTLISSLIKAGRSNEVSMILEEMSEKGCKPDTVTYNVLINGFCVEND 308

Query:   357 FDVAKKYMQLMISKGFSPHFSVSHALIKG-FCNVGKVDEACGVLEELLKAGEAPHEDTWV 415
              + A + +  M+ KG  P   +S+ +I G F  + K +EA  + E++ + G +P   ++ 
Sbjct:   309 SESANRVLDEMVEKGLKPDV-ISYNMILGVFFRIKKWEEATYLFEDMPRRGCSPDTLSYR 367

Query:   416 MIVPQICAGEEMEKLGEVLNEIV 438
             ++   +C G + E+   +L+E++
Sbjct:   368 IVFDGLCEGLQFEEAAVILDEML 390

GO:0005739 "mitochondrion" evidence=ISM

GO:0009790 "embryo development" evidence=IMP

GO:0010154 "fruit development" evidence=IMP

GO:0048364 "root development" evidence=IMP

GO:0048367 "shoot system development" evidence=IMP

TAIR|locus:2116372 AT4G26680 "AT4G26680" [Arabidopsis thaliana (taxid:3702)]

 Score = 368 (134.6 bits), Expect = 4.6e-40, Sum P(2) = 4.6e-40
 Identities = 89/321 (27%), Positives = 154/321 (47%)

Query:   129 TPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDL 188
             TP +F  L K +A       A  TF  M ++   P  +  N  +  L+  +  +  A   
Sbjct:   167 TPRVFDSLFKTFAHLKKFRNATDTFMQMKDYGFLPTVESCNAYMSSLLG-QGRVDIALRF 225

Query:   189 FKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCR 248
             ++   +  + PN  + N++M  +C +G +     L   M   G      SY  L+ G C 
Sbjct:   226 YREMRRCKISPNPYTLNMVMSGYCRSGKLDKGIELLQDMERLGFRATDVSYNTLIAGHCE 285

Query:   249 KSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVH 308
             K  ++ A+ L   M   G  P+ +++ TL++  CR  KL+EA K+   MK     P+ V 
Sbjct:   286 KGLLSSALKLKNMMGKSGLQPNVVTFNTLIHGFCRAMKLQEASKVFGEMKAVNVAPNTVT 345

Query:   309 YNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMI 368
             YNT++ G+ ++G    A +  EDM  NG   ++++Y  L+ GLC Q     A ++++ + 
Sbjct:   346 YNTLINGYSQQGDHEMAFRFYEDMVCNGIQRDILTYNALIFGLCKQAKTRKAAQFVKELD 405

Query:   369 SKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEME 428
              +   P+ S   ALI G C     D    + + ++++G  P+E T+ M+V   C  E+ +
Sbjct:   406 KENLVPNSSTFSALIMGQCVRKNADRGFELYKSMIRSGCHPNEQTFNMLVSAFCRNEDFD 465

Query:   429 KLGEVLNEIVKVEIKGDTRIV 449
                +VL E+V+  I  D+R V
Sbjct:   466 GASQVLREMVRRSIPLDSRTV 486

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2024296 AT1G09900 "AT1G09900" [Arabidopsis thaliana (taxid:3702)]

 Score = 423 (154.0 bits), Expect = 1.1e-39, P = 1.1e-39
 Identities = 108/352 (30%), Positives = 168/352 (47%)

Query:    78 AKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLI 137
             A  + D  S  P+    N T L  +   G+ K    + D +  L+ + YP   + +T LI
Sbjct:   191 ALSVLDRMSVSPDVVTYN-TILRSLCDSGKLKQAMEVLDRM--LQRDCYPDVIT-YTILI 246

Query:   138 KIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGV 197
             +     +    A+K    M +  C P     N +L   +     L  A          G 
Sbjct:   247 EATCRDSGVGHAMKLLDEMRDRGCTPDVVTYN-VLVNGICKEGRLDEAIKFLNDMPSSGC 305

Query:   198 LPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVD 257
              PN  ++NI++R+ C  G    A  L   M  +G  P V ++ IL+  LCRK  + RA+D
Sbjct:   306 QPNVITHNIILRSMCSTGRWMDAEKLLADMLRKGFSPSVVTFNILINFLCRKGLLGRAID 365

Query:   258 LLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFC 317
             +LE M   G  P++LSY  LL+  C++KK+  A + L RM  +GC PDIV YNT++   C
Sbjct:   366 ILEKMPQHGCQPNSLSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALC 425

Query:   318 REGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFS 377
             ++G+  DA ++L  + S GC P L++Y T++ GL   G    A K +  M +K   P   
Sbjct:   426 KDGKVEDAVEILNQLSSKGCSPVLITYNTVIDGLAKAGKTGKAIKLLDEMRAKDLKPDTI 485

Query:   378 VSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEK 429
                +L+ G    GKVDEA     E  + G  P+  T+  I+  +C   + ++
Sbjct:   486 TYSSLVGGLSREGKVDEAIKFFHEFERMGIRPNAVTFNSIMLGLCKSRQTDR 537

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8LDU5	PP298_ARATH	No assigned EC number	0.6571	0.9425	0.9506	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00140512 hypothetical protein (475 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

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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	470
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-18
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-13
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-12
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-11
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-06
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-06
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-06
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
pfam01535	31	pfam01535, PPR, PPR repeat	2e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-05
pfam01535	31	pfam01535, PPR, PPR repeat	7e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-04
pfam01535	31	pfam01535, PPR, PPR repeat	7e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.003
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.004

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

 Score = 86.5 bits (214), Expect = 7e-18
 Identities = 58/238 (24%), Positives = 100/238 (42%), Gaps = 37/238 (15%)

Query: 116 DILITLKSEHYPVTPSLFTY--LIKIYAESNLPDRALKTFRSMLEFNCKPLP-------- 165
           D+L  +K+E +P+ P   T   L+K  A +   DRA + ++ + E+N K  P        
Sbjct: 563 DVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVN 622

Query: 166 ---------------KQLNRI--------LELLVT---HRNYLRPAFDLFKSAHKHGVLP 199
                            + +            LV    H   L  AF++ + A K G+  
Sbjct: 623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL 682

Query: 200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLL 259
            T SY+ +M A     +   A  L+  +    + P V +   L+  LC  +Q+ +A+++L
Sbjct: 683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVL 742

Query: 260 EDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFC 317
            +M   G  P+T++Y+ LL +  RK        LL + K  G  P++V    +  G C
Sbjct: 743 SEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLC 799

Length = 1060

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

 Score = 69.4 bits (171), Expect = 3e-15
 Identities = 20/50 (40%), Positives = 33/50 (66%)

Query: 199 PNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCR 248
           P+  +YN ++  +C  G +  A  LFN+M +RG+ P+V +Y IL+ GLC+
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 = 66.7 bits (164), Expect = 2e-14
 Identities = 19/50 (38%), Positives = 32/50 (64%)

Query: 269 PDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCR 318
           PD ++Y TL++  C+K K+ EA KL   MK +G  P++  Y+ ++ G C+
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 = 65.5 bits (161), Expect = 7e-14
 Identities = 18/50 (36%), Positives = 31/50 (62%)

Query: 234 PDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR 283
           PDV +Y  L+ G C+K +V  A+ L  +M  +G  P+  +Y+ L++ LC+
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 = 65.1 bits (160), Expect = 9e-14
 Identities = 20/50 (40%), Positives = 33/50 (66%)

Query: 304 PDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCD 353
           PD+V YNT++ G+C++G+  +A K+  +M   G  PN+ +Y  L+ GLC 
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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 73.0 bits (179), Expect = 2e-13
 Identities = 55/258 (21%), Positives = 107/258 (41%), Gaps = 10/258 (3%)

Query: 186 FDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQG 245
           F++F      GV  N  ++  ++      G ++ A+  +  M  + V PD   +  L+  
Sbjct: 492 FEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISA 551

Query: 246 LCRKSQVNRAVDLLEDML--NKGFVPDTLSYTTLLNSLCRK---KKLREAYKLLCRMKVK 300
             +   V+RA D+L +M        PD ++   L+ +        + +E Y+++    +K
Sbjct: 552 CGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIK 611

Query: 301 GCNPDIVHYNTVVLGFCREGRAID-ACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDV 359
           G  P++    T+ +  C +    D A  + +DM   G  P+ V +  LV      G  D 
Sbjct: 612 G-TPEVY---TIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK 667

Query: 360 AKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVP 419
           A + +Q    +G         +L+    N     +A  + E++      P   T   ++ 
Sbjct: 668 AFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALIT 727

Query: 420 QICAGEEMEKLGEVLNEI 437
            +C G ++ K  EVL+E+
Sbjct: 728 ALCEGNQLPKALEVLSEM 745

Length = 1060

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

 Score = 68.4 bits (167), Expect = 4e-12
 Identities = 41/192 (21%), Positives = 82/192 (42%), Gaps = 2/192 (1%)

Query: 185 AFDLFK--SAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRIL 242
           AFD+     A  H + P+  +   +M+A    G +  A  ++  + E  +    E Y I 
Sbjct: 561 AFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIA 620

Query: 243 MQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGC 302
           +    +K   + A+ + +DM  KG  PD + ++ L++       L +A+++L   + +G 
Sbjct: 621 VNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGI 680

Query: 303 NPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKK 362
               V Y++++           A ++ ED+ S    P + +   L+  LC+      A +
Sbjct: 681 KLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALE 740

Query: 363 YMQLMISKGFSP 374
            +  M   G  P
Sbjct: 741 VLSEMKRLGLCP 752

Length = 1060

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

 Score = 66.4 bits (162), Expect = 1e-11
 Identities = 59/223 (26%), Positives = 99/223 (44%), Gaps = 21/223 (9%)

Query: 169 NRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMF 228
           N +L+L V     +  A++ F S  K     +  S+NI++  +  +G  S+A  LFN+M 
Sbjct: 528 NALLDLYV-RCGRMNYAWNQFNSHEK-----DVVSWNILLTGYVAHGKGSMAVELFNRMV 581

Query: 229 ERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK-GFVPDTLSYTTLLNSLCRKKKL 287
           E GV PD  ++  L+    R   V + ++    M  K    P+   Y  +++ L R  KL
Sbjct: 582 ESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKL 641

Query: 288 REAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAID----ACKVLEDMPSNGCLPNLVS 343
            EAY  + +M +    PD   +   +L  CR  R ++    A + + ++      PN V 
Sbjct: 642 TEAYNFINKMPIT---PDPAVWGA-LLNACRIHRHVELGELAAQHIFELD-----PNSVG 692

Query: 344 YRTLVGGL-CDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKG 385
           Y  L+  L  D G +D   +  + M   G +     S   +KG
Sbjct: 693 YYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKG 735

Length = 857

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

 Score = 59.5 bits (144), Expect = 2e-09
 Identities = 55/236 (23%), Positives = 95/236 (40%), Gaps = 51/236 (21%)

Query: 136 LIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNY------------LR 183
           LI++Y++    D+AL+ F ++ E   K +    + I  L + +R +            L+
Sbjct: 430 LIEMYSKCKCIDKALEVFHNIPE---KDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLK 486

Query: 184 P----------------AFDLFKSAHKH---------GVLPNTKSYNIMMRAFCFNGDIS 218
           P                A    K  H H         G LPN     + +   C  G ++
Sbjct: 487 PNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNAL---LDLYVRC--GRMN 541

Query: 219 IAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLL 278
            A+  FN   +     DV S+ IL+ G     + + AV+L   M+  G  PD +++ +LL
Sbjct: 542 YAWNQFNSHEK-----DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLL 596

Query: 279 NSLCRKKKLREAYKLLCRMKVK-GCNPDIVHYNTVVLGFCREGRAIDACKVLEDMP 333
            +  R   + +  +    M+ K    P++ HY  VV    R G+  +A   +  MP
Sbjct: 597 CACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP 652

Length = 857

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

 Score = 58.3 bits (141), Expect = 5e-09
 Identities = 46/216 (21%), Positives = 93/216 (43%), Gaps = 4/216 (1%)

Query: 199 PNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDL 258
           P   ++N++M     + DI  A  +   + E G+  D + Y  L+    +  +V+   ++
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 259 LEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCR 318
             +M+N G   +  ++  L++   R  ++ +A+     M+ K   PD V +N ++   C 
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISA-CG 553

Query: 319 EGRAID-ACKVLEDMPSNG--CLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH 375
           +  A+D A  VL +M +      P+ ++   L+    + G  D AK+  Q++        
Sbjct: 554 QSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGT 613

Query: 376 FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHE 411
             V    +      G  D A  + +++ K G  P E
Sbjct: 614 PEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDE 649

Length = 1060

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

 Score = 50.0 bits (121), Expect = 1e-08
 Identities = 16/34 (47%), Positives = 24/34 (70%)

Query: 300 KGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMP 333
           KG  PD+V YNT++ G CR GR  +A ++L++M 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 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 = 47.7 bits (115), Expect = 1e-07
 Identities = 15/34 (44%), Positives = 23/34 (67%)

Query: 265 KGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMK 298
           KG  PD ++Y TL++ LCR  ++ EA +LL  M+
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 46.2 bits (111), Expect = 4e-07
 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 2/51 (3%)

Query: 339 PNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSP-HFSVSHALIKGFCN 388
           P++V+Y TL+ G C +G  + A K    M  +G  P  ++ S  LI G C 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYS-ILIDGLCK 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 45.1 bits (108), Expect = 8e-07
 Identities = 13/34 (38%), Positives = 22/34 (64%)

Query: 273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDI 306
           +Y TL++ LC+  ++ EA +L   MK +G  PD+
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 44.3 bits (106), Expect = 1e-06
 Identities = 16/33 (48%), Positives = 25/33 (75%)

Query: 230 RGVMPDVESYRILMQGLCRKSQVNRAVDLLEDM 262
           +G+ PDV +Y  L+ GLCR  +V+ AV+LL++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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 50.6 bits (121), Expect = 1e-06
 Identities = 42/196 (21%), Positives = 89/196 (45%), Gaps = 5/196 (2%)

Query: 201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLE 260
           T ++N M+  +  +G    A  L+ +M + GV  D  ++ I+++   R + +  A     
Sbjct: 290 TVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHA 349

Query: 261 DMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREG 320
            ++  GF  D ++ T L++   +  ++ +A  +  RM  K    +++ +N ++ G+   G
Sbjct: 350 GLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHG 405

Query: 321 RAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMI-SKGFSPHFSVS 379
           R   A ++ E M + G  PN V++  ++      G+ +   +  Q M  +    P     
Sbjct: 406 RGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHY 465

Query: 380 HALIKGFCNVGKVDEA 395
             +I+     G +DEA
Sbjct: 466 ACMIELLGREGLLDEA 481

Length = 697

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

 Score = 50.2 bits (120), Expect = 2e-06
 Identities = 47/222 (21%), Positives = 89/222 (40%), Gaps = 12/222 (5%)

Query: 203 SYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDM 262
           S+N M+  +  NG+      LF  M E  V PD+ +   ++             ++   +
Sbjct: 255 SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYV 314

Query: 263 LNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRA 322
           +  GF  D     +L+          EA K+  RM+ K    D V +  ++ G+ + G  
Sbjct: 315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLP 370

Query: 323 IDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHAL 382
             A +    M  +   P+ ++  +++      G  DV  K  +L   KG   +  V++AL
Sbjct: 371 DKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANAL 430

Query: 383 IKGFCNVGKVDEACGVLEELLKAGEAPHED--TWVMIVPQIC 422
           I+ +     +D+A  V   +      P +D  +W  I+  + 
Sbjct: 431 IEMYSKCKCIDKALEVFHNI------PEKDVISWTSIIAGLR 466

Length = 857

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

 Score = 49.9 bits (119), Expect = 2e-06
 Identities = 74/372 (19%), Positives = 133/372 (35%), Gaps = 75/372 (20%)

Query: 78  AKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLI 137
           A E+F+       F    STY  L+      K    +  +   ++S  +     +   ++
Sbjct: 106 ALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVL 165

Query: 138 KIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGV 197
            ++ +  +   A + F  M E N          I+  LV   NY R AF LF+   + G 
Sbjct: 166 LMHVKCGMLIDARRLFDEMPERNLA----SWGTIIGGLVDAGNY-REAFALFREMWEDGS 220

Query: 198 LPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPD----------------VESYRI 241
               +++ +M+RA    G       L   + + GV+ D                +E  R 
Sbjct: 221 DAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARC 280

Query: 242 LMQGLCRKSQV---------------NRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKK 286
           +  G+  K+ V                 A+ L  +M + G   D  +++ ++    R   
Sbjct: 281 VFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLAL 340

Query: 287 LREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRT 346
           L  A +    +   G   DIV    +V  + + GR  DA  V + MP      NL+S+  
Sbjct: 341 LEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISW-- 394

Query: 347 LVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAG 406
                                            +ALI G+ N G+  +A  + E ++  G
Sbjct: 395 ---------------------------------NALIAGYGNHGRGTKAVEMFERMIAEG 421

Query: 407 EAPHEDTWVMIV 418
            AP+  T++ ++
Sbjct: 422 VAPNHVTFLAVL 433

Length = 697

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

 Score = 42.0 bits (100), Expect = 1e-05
 Identities = 11/44 (25%), Positives = 21/44 (47%), Gaps = 1/44 (2%)

Query: 169 NRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFC 212
           N +++     +  +  A  LF    K G+ PN  +Y+I++   C
Sbjct: 7   NTLIDGYC-KKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 40.9 bits (97), Expect = 2e-05
 Identities = 12/34 (35%), Positives = 21/34 (61%)

Query: 238 SYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDT 271
           +Y  L+ GLC+  +V  A++L ++M  +G  PD 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 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 = 41.3 bits (98), Expect = 2e-05
 Identities = 12/30 (40%), Positives = 18/30 (60%)

Query: 273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGC 302
           +Y +L++  C+  KL EA +L   MK KG 
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 40.4 bits (96), Expect = 4e-05
 Identities = 9/32 (28%), Positives = 17/32 (53%)

Query: 196 GVLPNTKSYNIMMRAFCFNGDISIAYTLFNKM 227
           G+ P+  +YN ++   C  G +  A  L ++M
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 39.4 bits (93), Expect = 7e-05
 Identities = 11/30 (36%), Positives = 18/30 (60%)

Query: 203 SYNIMMRAFCFNGDISIAYTLFNKMFERGV 232
           +YN ++  +C  G +  A  LF +M E+GV
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 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 = 38.6 bits (91), Expect = 1e-04
 Identities = 12/34 (35%), Positives = 21/34 (61%)

Query: 307 VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN 340
           V YNT++ G C+ GR  +A ++ ++M   G  P+
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 38.2 bits (90), Expect = 2e-04
 Identities = 12/33 (36%), Positives = 18/33 (54%)

Query: 342 VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSP 374
           V+Y TL+ GLC  G  + A +  + M  +G  P
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33

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 = 37.4 bits (88), Expect = 4e-04
 Identities = 14/34 (41%), Positives = 20/34 (58%)

Query: 203 SYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDV 236
           +YN ++   C  G +  A  LF +M ERG+ PDV
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 36.9 bits (87), Expect = 5e-04
 Identities = 13/33 (39%), Positives = 19/33 (57%)

Query: 335 NGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLM 367
            G  P++V+Y TL+ GLC  G  D A + +  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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 41.8 bits (98), Expect = 7e-04
 Identities = 37/196 (18%), Positives = 88/196 (44%), Gaps = 10/196 (5%)

Query: 203 SYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDM 262
           S+N+++  +   G    A  L+++M   GV PDV ++  +++       + R  ++   +
Sbjct: 154 SWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHV 213

Query: 263 LNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRA 322
           +  GF  D      L+    +   +  A  +  RM  +    D + +N ++ G+   G  
Sbjct: 214 VRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGEC 269

Query: 323 IDACKVLEDMPSNGCLPNLVSYRTLV---GGLCDQGMFDVAKKYMQLMISKGFSPHFSVS 379
           ++  ++   M      P+L++  +++     L D+ +    ++    ++  GF+   SV 
Sbjct: 270 LEGLELFFTMRELSVDPDLMTITSVISACELLGDERL---GREMHGYVVKTGFAVDVSVC 326

Query: 380 HALIKGFCNVGKVDEA 395
           ++LI+ + ++G   EA
Sbjct: 327 NSLIQMYLSLGSWGEA 342

Length = 857

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

 Score = 36.7 bits (86), Expect = 7e-04
 Identities = 9/31 (29%), Positives = 20/31 (64%)

Query: 307 VHYNTVVLGFCREGRAIDACKVLEDMPSNGC 337
           V YN+++ G+C+ G+  +A ++ ++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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 39.8 bits (93), Expect = 0.003
 Identities = 58/301 (19%), Positives = 116/301 (38%), Gaps = 37/301 (12%)

Query: 133 FTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSA 192
           +T +I  Y ++ LPD+AL+T+  M + N  P    +  +L         L     L + A
Sbjct: 357 WTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACAC-LGDLDVGVKLHELA 415

Query: 193 HKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQV 252
            + G++      N ++  +     I  A  +F+ + E+    DV S+  ++ GL   ++ 
Sbjct: 416 ERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRC 471

Query: 253 NRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLR-----EAYKLLCRMKVKG------ 301
             A+     ML     P++++    L++  R   L       A+ L   +   G      
Sbjct: 472 FEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNAL 530

Query: 302 -------------------CNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLV 342
                                 D+V +N ++ G+   G+   A ++   M  +G  P+ V
Sbjct: 531 LDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEV 590

Query: 343 SYRTLVGGLCDQGMFDVAKKYMQLMISK-GFSPHFSVSHALIKGFCNVGKVDEACGVLEE 401
           ++ +L+      GM     +Y   M  K   +P+      ++      GK+ EA   + +
Sbjct: 591 TFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINK 650

Query: 402 L 402
           +
Sbjct: 651 M 651

Length = 857

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

 Score = 34.6 bits (81), Expect = 0.003
 Identities = 11/20 (55%), Positives = 14/20 (70%)

Query: 382 LIKGFCNVGKVDEACGVLEE 401
           LI G C  G+VDEA  +L+E
Sbjct: 13  LIDGLCRAGRVDEAVELLDE 32

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|144943 pfam01535, PPR, PPR repeat

 Score = 34.4 bits (80), Expect = 0.004
 Identities = 9/30 (30%), Positives = 18/30 (60%)

Query: 238 SYRILMQGLCRKSQVNRAVDLLEDMLNKGF 267
           +Y  L+ G C+  ++  A++L ++M  KG 
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	470
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
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.94
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.91
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.89
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.89
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.89
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.88
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.88
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.86
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.85
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.83
PRK14574	822	hmsH outer membrane protein; Provisional	99.8
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.79
PRK14574	822	hmsH outer membrane protein; Provisional	99.78
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.74
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.73
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.71
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.7
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.68
KOG2076	895	consensus RNA polymerase III transcription factor	99.68
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.67
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.67
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.65
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.64
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.62
KOG2076	895	consensus RNA polymerase III transcription factor	99.61
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.6
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.6
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.59
KOG1126	638	consensus DNA-binding cell division cycle control	99.59
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.59
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.58
KOG2003	840	consensus TPR repeat-containing protein [General f	99.57
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.57
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.55
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.53
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.52
KOG1126	638	consensus DNA-binding cell division cycle control	99.48
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.47
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.46
KOG2003	840	consensus TPR repeat-containing protein [General f	99.44
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.44
PRK12370	553	invasion protein regulator; Provisional	99.43
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.43
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.41
PRK12370	553	invasion protein regulator; Provisional	99.39
KOG1129	478	consensus TPR repeat-containing protein [General f	99.37
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.35
PF13041	50	PPR_2: PPR repeat family	99.35
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.34
PF13041	50	PPR_2: PPR repeat family	99.34
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.33
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.31
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.29
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.29
KOG1129	478	consensus TPR repeat-containing protein [General f	99.28
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.27
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.25
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.25
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.24
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.24
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.23
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.21
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.19
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.18
PRK11189	296	lipoprotein NlpI; Provisional	99.17
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.16
PRK11189	296	lipoprotein NlpI; Provisional	99.14
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.12
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.12
PRK04841	903	transcriptional regulator MalT; Provisional	99.09
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.08
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.08
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.08
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.06
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.04
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.03
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.01
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.94
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.9
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.89
KOG1125	579	consensus TPR repeat-containing protein [General f	98.86
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.85
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.84
KOG1125	579	consensus TPR repeat-containing protein [General f	98.84
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.83
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.8
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.74
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.74
PF12854	34	PPR_1: PPR repeat	98.74
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.73
PRK04841	903	transcriptional regulator MalT; Provisional	98.73
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.72
PLN02789	320	farnesyltranstransferase	98.72
PLN02789	320	farnesyltranstransferase	98.72
PF12854	34	PPR_1: PPR repeat	98.71
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.7
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.66
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.64
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.64
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.63
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.6
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.6
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.6
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.57
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.52
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.52
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.51
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.5
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.48
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.43
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.42
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.41
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.39
PRK15359	144	type III secretion system chaperone protein SscB;	98.39
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.39
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.39
PRK15359	144	type III secretion system chaperone protein SscB;	98.38
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.37
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.36
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.34
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.29
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.28
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.27
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.25
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.22
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.22
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.21
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.17
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.15
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.15
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.11
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.1
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.09
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.09
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.08
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.06
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.05
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.05
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.02
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.87
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.86
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.79
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.78
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.78
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.74
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.73
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.72
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.71
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.7
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.69
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.68
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.66
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.65
KOG0553	304	consensus TPR repeat-containing protein [General f	97.64
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.64
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.6
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.59
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.59
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.58
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.56
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.55
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.54
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.53
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.51
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.48
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.47
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.47
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.47
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.46
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.44
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.42
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.39
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.38
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.36
KOG0553	304	consensus TPR repeat-containing protein [General f	97.34
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.3
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.27
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.24
PF12688	120	TPR_5: Tetratrico peptide repeat	97.24
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.22
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.16
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.14
PF12688	120	TPR_5: Tetratrico peptide repeat	97.11
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.1
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.1
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.08
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.08
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.06
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.98
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.95
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.92
PRK10803	263	tol-pal system protein YbgF; Provisional	96.88
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.86
PRK10803	263	tol-pal system protein YbgF; Provisional	96.75
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.71
PF13371	73	TPR_9: Tetratricopeptide repeat	96.68
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.63
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.63
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.62
PRK15331	165	chaperone protein SicA; Provisional	96.6
PF13371	73	TPR_9: Tetratricopeptide repeat	96.57
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.56
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.55
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.52
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.52
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.49
PRK15331	165	chaperone protein SicA; Provisional	96.32
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.31
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.19
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.19
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.97
KOG3941	406	consensus Intermediate in Toll signal transduction	95.96
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.86
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.83
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.81
KOG3941	406	consensus Intermediate in Toll signal transduction	95.8
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	95.77
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.77
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.75
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.72
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.69
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.67
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.66
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.64
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.6
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.59
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.55
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.43
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.41
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.36
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.32
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.18
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.08
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.95
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.93
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.83
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.8
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.73
PF13512	142	TPR_18: Tetratricopeptide repeat	94.73
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.69
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.68
KOG4555	175	consensus TPR repeat-containing protein [Function	94.6
KOG1585	308	consensus Protein required for fusion of vesicles	94.56
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.48
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.47
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.41
PF13512	142	TPR_18: Tetratricopeptide repeat	94.36
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	94.23
PRK11906	458	transcriptional regulator; Provisional	94.23
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.22
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.06
KOG4555	175	consensus TPR repeat-containing protein [Function	93.97
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.93
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.85
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.82
PF13428	44	TPR_14: Tetratricopeptide repeat	93.82
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.79
COG0457	291	NrfG FOG: TPR repeat [General function prediction	93.72
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.57
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.55
PF13428	44	TPR_14: Tetratricopeptide repeat	93.5
PRK11906	458	transcriptional regulator; Provisional	93.46
COG3118	304	Thioredoxin domain-containing protein [Posttransla	93.45
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.18
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.04
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.81
KOG1585	308	consensus Protein required for fusion of vesicles	92.42
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.08
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.92
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.9
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.55
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.25
KOG1258	577	consensus mRNA processing protein [RNA processing	91.06
COG1747	711	Uncharacterized N-terminal domain of the transcrip	90.68
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	90.63
KOG1941	518	consensus Acetylcholine receptor-associated protei	90.6
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	90.56
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.39
PF13929	292	mRNA_stabil: mRNA stabilisation	90.37
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	90.37
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	89.48
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	89.23
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	89.22
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.09
PF13431	34	TPR_17: Tetratricopeptide repeat	88.99
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.77
PF13431	34	TPR_17: Tetratricopeptide repeat	88.73
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	88.53
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	88.47
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	88.31
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.22
COG3947	361	Response regulator containing CheY-like receiver a	88.08
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	88.07
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	87.95
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	87.61
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	87.53
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	87.53
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	87.51
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	87.19
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	87.13
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	86.96
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	86.61
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	86.43
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	86.25
COG5159	421	RPN6 26S proteasome regulatory complex component [	86.1
COG1747	711	Uncharacterized N-terminal domain of the transcrip	85.88
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	85.83
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.81
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	85.75
PF13929	292	mRNA_stabil: mRNA stabilisation	85.68
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	84.64
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	84.36
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	84.06
COG3947	361	Response regulator containing CheY-like receiver a	83.95
KOG4234	271	consensus TPR repeat-containing protein [General f	83.7
COG4455	273	ImpE Protein of avirulence locus involved in tempe	82.94
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	82.94
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	82.57
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	81.46
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	81.07
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	81.04
KOG4234	271	consensus TPR repeat-containing protein [General f	80.27
PRK09687	280	putative lyase; Provisional	80.16
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	80.12

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.3e-60  Score=478.19  Aligned_cols=393  Identities=19%  Similarity=0.239  Sum_probs=372.6

Q ss_pred             hHHHHHHHhcCCChHHHHHHHHHhhcCCCCC-------------------------------CCHHHHHHHHHHHHccCC
Q 012126           62 PCRVQKLIASQSDPLLAKEIFDYASRQPNFR-------------------------------HSNSTYLILILKLGRAKY  110 (470)
Q Consensus        62 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-------------------------------~~~~~~~~ll~~~~~~~~  110 (470)
                      ...+...+.+.|+++.|+++|++|...+-++                               |+..+|+.++.+|++.|+
T Consensus       373 ~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a~~k~g~  452 (1060)
T PLN03218        373 YIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQD  452 (1060)
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHhCcC
Confidence            3444455567788888888888886543221                               678899999999999999


Q ss_pred             chHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHH
Q 012126          111 FSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFK  190 (470)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~  190 (470)
                      ++.|.++|+.|.+.|+.|+..+|+.||.+|++.|++++|.++|++|.+.|+.||..+|+.++..+++ .|++++|.++|+
T Consensus       453 ~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k-~G~~eeAl~lf~  531 (1060)
T PLN03218        453 IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR-AGQVAKAFGAYG  531 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-CcCHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999984 556999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH--CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC
Q 012126          191 SAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFE--RGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV  268 (470)
Q Consensus       191 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  268 (470)
                      +|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+  .|+.||..+|++++.+|++.|++++|.++|++|.+.|+.
T Consensus       532 ~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~  611 (1060)
T PLN03218        532 IMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIK  611 (1060)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence            999999999999999999999999999999999999986  679999999999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHH
Q 012126          269 PDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLV  348 (470)
Q Consensus       269 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li  348 (470)
                      |+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.+++++|.+.|+.||..+|+.+|
T Consensus       612 p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI  691 (1060)
T PLN03218        612 GTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLM  691 (1060)
T ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHH
Q 012126          349 GGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEME  428 (470)
Q Consensus       349 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  428 (470)
                      .+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++
T Consensus       692 ~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le  771 (1060)
T PLN03218        692 GACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDAD  771 (1060)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHccccCCceeeecccch
Q 012126          429 KLGEVLNEIVKVEIKGDTRIVEAGIGL  455 (470)
Q Consensus       429 ~a~~~~~~m~~~~~~p~~~~~~~~~~~  455 (470)
                      +|.+++++|.+.|+.||..+++.++++
T Consensus       772 ~A~~l~~~M~k~Gi~pd~~tynsLIgl  798 (1060)
T PLN03218        772 VGLDLLSQAKEDGIKPNLVMCRCITGL  798 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            999999999999999999999988765

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=9e-59  Score=469.83  Aligned_cols=380  Identities=18%  Similarity=0.236  Sum_probs=352.6

Q ss_pred             ChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCC--------------------------
Q 012126           74 DPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYP--------------------------  127 (470)
Q Consensus        74 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--------------------------  127 (470)
                      +...++...++....   .++...|..++..+++.|++++|.++|++|...++.                          
T Consensus       352 ~~~~~~~~~~~~~~~---~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~l  428 (1060)
T PLN03218        352 EEENSLAAYNGGVSG---KRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRF  428 (1060)
T ss_pred             hhhhhHHHhccccCC---CCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            334445555544322   345667777777777888888888888888776642                          


Q ss_pred             ------CCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCH
Q 012126          128 ------VTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNT  201 (470)
Q Consensus       128 ------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  201 (470)
                            |+..+|+.++.+|++.|+++.|.++|++|.+.|+.||..+|+.++..+++ .|++++|.++|++|.+.|+.||.
T Consensus       429 f~~M~~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k-~G~vd~A~~vf~eM~~~Gv~Pdv  507 (1060)
T PLN03218        429 AKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAK-SGKVDAMFEVFHEMVNAGVEANV  507 (1060)
T ss_pred             HHHcCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-CcCHHHHHHHHHHHHHcCCCCCH
Confidence                  57789999999999999999999999999999999999999999999995 55699999999999999999999


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh--CCCCCCHhhHHHHHH
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLN--KGFVPDTLSYTTLLN  279 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~ll~  279 (470)
                      .+|+.||.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+++|.
T Consensus       508 vTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~  587 (1060)
T PLN03218        508 HTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMK  587 (1060)
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999986  678999999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHH
Q 012126          280 SLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDV  359 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  359 (470)
                      +|++.|++++|.++|+.|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++
T Consensus       588 ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~ee  667 (1060)
T PLN03218        588 ACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK  667 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          360 AKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       360 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      |.+++++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+
T Consensus       668 A~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~  747 (1060)
T PLN03218        668 AFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR  747 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccCCceeeecccchhh
Q 012126          440 VEIKGDTRIVEAGIGLED  457 (470)
Q Consensus       440 ~~~~p~~~~~~~~~~~~~  457 (470)
                      .|+.||..++..++..+.
T Consensus       748 ~Gi~Pd~~Ty~sLL~a~~  765 (1060)
T PLN03218        748 LGLCPNTITYSILLVASE  765 (1060)
T ss_pred             cCCCCCHHHHHHHHHHHH
Confidence            999999999998876544

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

Probab=100.00  E-value=1.4e-54  Score=436.56  Aligned_cols=381  Identities=18%  Similarity=0.242  Sum_probs=332.9

Q ss_pred             hHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 012126           62 PCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYA  141 (470)
Q Consensus        62 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  141 (470)
                      -..+...+...|++++|+++|+++....++.|+..+|+.++.+|++.++++.+.+++..|.+.|+.|+..+|+.|+..|+
T Consensus        90 ~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~  169 (697)
T PLN03081         90 LCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHV  169 (697)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHh
Confidence            35556777889999999999999987766789999999999999999999999999999999999999999999999999


Q ss_pred             HcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHH-------------------
Q 012126          142 ESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTK-------------------  202 (470)
Q Consensus       142 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------------------  202 (470)
                      +.|++++|.++|++|.+    ||..+|+.++..+++. |++++|+++|++|.+.|+.||..                   
T Consensus       170 k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~-g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~  244 (697)
T PLN03081        170 KCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDA-GNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ  244 (697)
T ss_pred             cCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHC-cCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHH
Confidence            99999999999999864    7888999999998854 56899999999998777666544                   


Q ss_pred             ----------------HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 012126          203 ----------------SYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKG  266 (470)
Q Consensus       203 ----------------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  266 (470)
                                      +|+.|+.+|++.|++++|.++|++|.+    +|..+|+.++.+|++.|+.++|+++|++|.+.|
T Consensus       245 ~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g  320 (697)
T PLN03081        245 QLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSG  320 (697)
T ss_pred             HHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence                            456777888888888888888888864    488889999999999999999999999998888


Q ss_pred             CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHH
Q 012126          267 FVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRT  346 (470)
Q Consensus       267 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  346 (470)
                      +.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+|++||.+|++.|++++|.++|++|.+    ||..+|+.
T Consensus       321 ~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~  396 (697)
T PLN03081        321 VSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNA  396 (697)
T ss_pred             CCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHH
Confidence            89999999999999999999999999999999988889999999999999999999999999998864    68889999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHcCC
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLK-AGEAPHEDTWVMIVPQICAGE  425 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~p~~~~~~~l~~~~~~~g  425 (470)
                      ||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++|++|.+ .|+.|+..+|+.++.+|++.|
T Consensus       397 lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G  476 (697)
T PLN03081        397 LIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREG  476 (697)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcC
Confidence            9999999999999999999999889999999999999999999999999999999975 588899999999999999999


Q ss_pred             cHHHHHHHHHHHHHccccCCceeeecccchhhH
Q 012126          426 EMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDY  458 (470)
Q Consensus       426 ~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~  458 (470)
                      ++++|.+++++|   ++.|+..++..++..+..
T Consensus       477 ~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~  506 (697)
T PLN03081        477 LLDEAYAMIRRA---PFKPTVNMWAALLTACRI  506 (697)
T ss_pred             CHHHHHHHHHHC---CCCCCHHHHHHHHHHHHH
Confidence            999998888766   577888888777766543

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

Probab=100.00  E-value=5.2e-53  Score=425.21  Aligned_cols=373  Identities=15%  Similarity=0.227  Sum_probs=337.4

Q ss_pred             hHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 012126           62 PCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYA  141 (470)
Q Consensus        62 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  141 (470)
                      ...+...+...++.+.+.+++..+.+. |+.|+..+|+.++..|++.|+++.|.++|++|.+    ++..+|+.++.+|+
T Consensus       126 ~~~ll~a~~~~~~~~~a~~l~~~m~~~-g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~  200 (697)
T PLN03081        126 YDALVEACIALKSIRCVKAVYWHVESS-GFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLV  200 (697)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHh-CCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHH
Confidence            345556677888999999999988754 5788999999999999999999999999999863    68889999999999


Q ss_pred             HcCCchhHHHHHHHHHhCCCccCHHHHHHH-----------------------------------HHHHHhcCCChhhHH
Q 012126          142 ESNLPDRALKTFRSMLEFNCKPLPKQLNRI-----------------------------------LELLVTHRNYLRPAF  186 (470)
Q Consensus       142 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l-----------------------------------l~~~~~~~~~~~~a~  186 (470)
                      +.|++++|+++|++|.+.|+.|+..+|+.+                                   +..+. ..|++++|.
T Consensus       201 ~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~-k~g~~~~A~  279 (697)
T PLN03081        201 DAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYS-KCGDIEDAR  279 (697)
T ss_pred             HCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHH-HCCCHHHHH
Confidence            999999999999999888877777666554                                   44444 445688999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 012126          187 DLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKG  266 (470)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  266 (470)
                      ++|++|..    +|..+||.||.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|
T Consensus       280 ~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g  355 (697)
T PLN03081        280 CVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTG  355 (697)
T ss_pred             HHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhC
Confidence            99998864    69999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHH
Q 012126          267 FVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRT  346 (470)
Q Consensus       267 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  346 (470)
                      +.||..+|++|+++|+++|++++|.++|++|.+    ||..+||+||.+|++.|+.++|+++|++|.+.|+.||..||+.
T Consensus       356 ~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~  431 (697)
T PLN03081        356 FPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLA  431 (697)
T ss_pred             CCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            999999999999999999999999999999974    6999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMIS-KGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGE  425 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  425 (470)
                      ++.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.+++++|   ++.|+..+|+.|+.+|...|
T Consensus       432 ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g  508 (697)
T PLN03081        432 VLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHK  508 (697)
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcC
Confidence            99999999999999999999986 699999999999999999999999999999876   57899999999999999999


Q ss_pred             cHHHHHHHHHHHHHccccCCc-eeeeccc
Q 012126          426 EMEKLGEVLNEIVKVEIKGDT-RIVEAGI  453 (470)
Q Consensus       426 ~~~~a~~~~~~m~~~~~~p~~-~~~~~~~  453 (470)
                      +++.|.++++++.  ++.|+. .++..++
T Consensus       509 ~~~~a~~~~~~l~--~~~p~~~~~y~~L~  535 (697)
T PLN03081        509 NLELGRLAAEKLY--GMGPEKLNNYVVLL  535 (697)
T ss_pred             CcHHHHHHHHHHh--CCCCCCCcchHHHH
Confidence            9999999999997  556654 3444333

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.2e-51  Score=424.96  Aligned_cols=374  Identities=13%  Similarity=0.149  Sum_probs=302.5

Q ss_pred             ChHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012126           61 SPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIY  140 (470)
Q Consensus        61 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  140 (470)
                      ....+...+.+.|+.+.|.++|+.+.     .++..+|+.+|..|++.|++++|.++|.+|...|+.|+..+|+.++.+|
T Consensus       224 ~~n~Li~~y~k~g~~~~A~~lf~~m~-----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~  298 (857)
T PLN03077        224 VVNALITMYVKCGDVVSARLVFDRMP-----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISAC  298 (857)
T ss_pred             hHhHHHHHHhcCCCHHHHHHHHhcCC-----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHH
Confidence            34566788888999999999999885     3567889999999999999999999999999999999999999999999


Q ss_pred             HHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHH
Q 012126          141 AESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIA  220 (470)
Q Consensus       141 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  220 (470)
                      ++.|+.+.|.+++..|.+.|+.||..+|+.++..+.+ .|++++|.++|++|..    ||..+||.+|.+|++.|++++|
T Consensus       299 ~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k-~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A  373 (857)
T PLN03077        299 ELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLS-LGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKA  373 (857)
T ss_pred             HhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHh-cCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHH
Confidence            9999999999999999999999999999999998884 4568999999998864    6888999999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          221 YTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       221 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      .++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|+.|+..+|+.|+++|++.|++++|.++|++|.+ 
T Consensus       374 ~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-  452 (857)
T PLN03077        374 LETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE-  452 (857)
T ss_pred             HHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC-
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999998874 


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 012126          301 GCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSH  380 (470)
Q Consensus       301 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  380 (470)
                         +|..+|+.+|.+|++.|+.++|+.+|++|.. ++.||..||+.++.+|++.|+++.+.+++..+.+.|+.+|..+++
T Consensus       453 ---~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~n  528 (857)
T PLN03077        453 ---KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPN  528 (857)
T ss_pred             ---CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceech
Confidence               4788899999999999999999999999975 588999999999988888888888888888888877766655555


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCceeeecccc
Q 012126          381 ALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIG  454 (470)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~~~~  454 (470)
                      +|+++|+++|++++|.++|+++     .||..+|+++|.+|++.|+.++|.++|++|.+.|+.||..++..++.
T Consensus       529 aLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~  597 (857)
T PLN03077        529 ALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLC  597 (857)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHH
Confidence            5555555555555555555444     24555555555555555555555555555555555555555544443

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.8e-51  Score=422.29  Aligned_cols=385  Identities=15%  Similarity=0.148  Sum_probs=316.0

Q ss_pred             CCCChHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012126           58 PIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLI  137 (470)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  137 (470)
                      ...+.+.+...+.+.|++++|+++|+.+... ++.|+..||+.++.+|++.|+++.+.+++..+.+.|+.|+..+|+.|+
T Consensus       252 d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~-g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li  330 (857)
T PLN03077        252 DCISWNAMISGYFENGECLEGLELFFTMREL-SVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLI  330 (857)
T ss_pred             CcchhHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHH
Confidence            3345678889999999999999999999854 578999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh
Q 012126          138 KIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDI  217 (470)
Q Consensus       138 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  217 (470)
                      .+|++.|++++|.++|++|..    ||..+|+.++..+.+ .|++++|+++|++|.+.|+.||..+|+.++.+|++.|++
T Consensus       331 ~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~-~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~  405 (857)
T PLN03077        331 QMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEK-NGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDL  405 (857)
T ss_pred             HHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHh-CCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchH
Confidence            999999999999999888854    677788888888874 455888888888888888888888888888888888888


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC------------------------------CC
Q 012126          218 SIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK------------------------------GF  267 (470)
Q Consensus       218 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------------------------------~~  267 (470)
                      +.|.++++.|.+.|+.|+..+|+.|+.+|++.|++++|.++|++|.+.                              ++
T Consensus       406 ~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~  485 (857)
T PLN03077        406 DVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTL  485 (857)
T ss_pred             HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCC
Confidence            888888888888888777777777777777777777777777766532                              23


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHH
Q 012126          268 VPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTL  347 (470)
Q Consensus       268 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  347 (470)
                      .||..+|+.++.+|++.|+++.+.+++..+.+.|+.++..++|+||.+|++.|++++|.++|+.+     .||..+|+++
T Consensus       486 ~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~l  560 (857)
T PLN03077        486 KPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNIL  560 (857)
T ss_pred             CCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHH
Confidence            44444444444444444444444444444444455555555566667777777778888777776     4789999999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH-HCCCCCCHHHHHHHHHHHHcCCc
Q 012126          348 VGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELL-KAGEAPHEDTWVMIVPQICAGEE  426 (470)
Q Consensus       348 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-~~~~~p~~~~~~~l~~~~~~~g~  426 (470)
                      |.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++|++|. +.|+.|+..+|+.++.+|++.|+
T Consensus       561 I~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~  640 (857)
T PLN03077        561 LTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGK  640 (857)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999998 67999999999999999999999


Q ss_pred             HHHHHHHHHHHHHccccCCceeeecccchh
Q 012126          427 MEKLGEVLNEIVKVEIKGDTRIVEAGIGLE  456 (470)
Q Consensus       427 ~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~  456 (470)
                      +++|.+++++|   .++||..++..++..+
T Consensus       641 ~~eA~~~~~~m---~~~pd~~~~~aLl~ac  667 (857)
T PLN03077        641 LTEAYNFINKM---PITPDPAVWGALLNAC  667 (857)
T ss_pred             HHHHHHHHHHC---CCCCCHHHHHHHHHHH
Confidence            99999999998   4789998888888755

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

Probab=99.95  E-value=2.8e-23  Score=218.55  Aligned_cols=366  Identities=14%  Similarity=0.060  Sum_probs=257.4

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 012126           63 CRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAE  142 (470)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  142 (470)
                      ..+..++...|+++.|.+.|+.+....  +.+..++..+...+.+.|++++|..+++.+...+ +.+...+..++..|..
T Consensus       503 ~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  579 (899)
T TIGR02917       503 ANLARIDIQEGNPDDAIQRFEKVLTID--PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLG  579 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHH
Confidence            345566777888888888888776543  3466777777777888888888888888876664 5566677777888888


Q ss_pred             cCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 012126          143 SNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYT  222 (470)
Q Consensus       143 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  222 (470)
                      .|++++|+++++.+.... ..+...+..+...+. ..|++++|...|+++.+... .+...+..+...+...|++++|..
T Consensus       580 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~-~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~  656 (899)
T TIGR02917       580 KGQLKKALAILNEAADAA-PDSPEAWLMLGRAQL-AAGDLNKAVSSFKKLLALQP-DSALALLLLADAYAVMKNYAKAIT  656 (899)
T ss_pred             CCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHH
Confidence            888888888888777632 223444444444443 55667888888888776543 256667777777878888888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 012126          223 LFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGC  302 (470)
Q Consensus       223 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  302 (470)
                      +|+++.+.... +..++..+...+...|++++|.++++.+.+.+.. +...+..+...+.+.|++++|...|+.+...  
T Consensus       657 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--  732 (899)
T TIGR02917       657 SLKRALELKPD-NTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPK-AALGFELEGDLYLRQKDYPAAIQAYRKALKR--  732 (899)
T ss_pred             HHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--
Confidence            88877765432 5677777777777788888888888777766533 5566777777777778888888887777765  


Q ss_pred             CCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 012126          303 NPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHAL  382 (470)
Q Consensus       303 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  382 (470)
                      .|+..++..+..++.+.|++++|.+.++.+.+.. +.+...+..+...|...|++++|..+|+++.+.. +.+..+++.+
T Consensus       733 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l  810 (899)
T TIGR02917       733 APSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNL  810 (899)
T ss_pred             CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            3444666667777777777777777777776653 3456677777777777777777777777777653 4456677777


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccc
Q 012126          383 IKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEI  442 (470)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  442 (470)
                      ...+...|+ ++|...++++.+... -+..++..+...+...|++++|.++++++++.+.
T Consensus       811 ~~~~~~~~~-~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       811 AWLYLELKD-PRALEYAEKALKLAP-NIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HHHHHhcCc-HHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            777777777 667777777766432 2445666677777777777777777777776543

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

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

Probab=99.94  E-value=5.5e-23  Score=216.29  Aligned_cols=361  Identities=13%  Similarity=0.066  Sum_probs=174.3

Q ss_pred             HHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC
Q 012126           66 QKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNL  145 (470)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  145 (470)
                      ...+...|+++.|+++++.+....  +.+..++..+...+...|++++|.+.++++.+.. +.+...+..+...+...|+
T Consensus       438 ~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~  514 (899)
T TIGR02917       438 ILSYLRSGQFDKALAAAKKLEKKQ--PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGN  514 (899)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCC
Confidence            344444555555555555444322  2344445555555555555555555555544432 3334444444555555555


Q ss_pred             chhHHHHHHHHHhCCCccCHHHHHHHHHHH---------------------------------HhcCCChhhHHHHHHHH
Q 012126          146 PDRALKTFRSMLEFNCKPLPKQLNRILELL---------------------------------VTHRNYLRPAFDLFKSA  192 (470)
Q Consensus       146 ~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~---------------------------------~~~~~~~~~a~~~~~~~  192 (470)
                      +++|.+.|+++...+ ..+...+..+...+                                 +...|++++|..+++.+
T Consensus       515 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  593 (899)
T TIGR02917       515 PDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEA  593 (899)
T ss_pred             HHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            555555555544422 11122222222222                                 22333445555555544


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHh
Q 012126          193 HKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTL  272 (470)
Q Consensus       193 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  272 (470)
                      .+... .+...|..+..++...|++++|...|+++.+... .+...+..+..++...|++++|...++++.+.... +..
T Consensus       594 ~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~  670 (899)
T TIGR02917       594 ADAAP-DSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQP-DSALALLLLADAYAVMKNYAKAITSLKRALELKPD-NTE  670 (899)
T ss_pred             HHcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHH
Confidence            43321 2444455555555555555555555555544322 13344444455555555555555555555443322 344


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHH
Q 012126          273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLC  352 (470)
Q Consensus       273 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  352 (470)
                      ++..+...+...|++++|..+++.+.+.+ +.+...+..+...+.+.|++++|...|+.+...+  |+..++..+..++.
T Consensus       671 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~  747 (899)
T TIGR02917       671 AQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALL  747 (899)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHH
Confidence            44555555555555555555555554442 2234444555555555555555555555555432  33344444555555


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHH
Q 012126          353 DQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGE  432 (470)
Q Consensus       353 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  432 (470)
                      +.|++++|.+.++.+.+.. +.+...+..+...|...|++++|.+.|+++.+.+ +.+...+..+...+...|+ ++|+.
T Consensus       748 ~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~  824 (899)
T TIGR02917       748 ASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALE  824 (899)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHH
Confidence            5555555555555555532 3344555555555555556666666655555543 2344555555555555555 55555


Q ss_pred             HHHHHHH
Q 012126          433 VLNEIVK  439 (470)
Q Consensus       433 ~~~~m~~  439 (470)
                      .++++.+
T Consensus       825 ~~~~~~~  831 (899)
T TIGR02917       825 YAEKALK  831 (899)
T ss_pred             HHHHHHh
Confidence            5555553

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=99.92  E-value=1.4e-21  Score=185.08  Aligned_cols=302  Identities=16%  Similarity=0.121  Sum_probs=227.4

Q ss_pred             HHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCC
Q 012126          140 YAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLP---NTKSYNIMMRAFCFNGD  216 (470)
Q Consensus       140 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~  216 (470)
                      +...|++++|+..|.++.+.  .|+.......+..++...|++++|..+++.+.+.+..+   ....+..+...|...|+
T Consensus        45 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKV--DPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            34555666666666666553  23333333333333334555666666666655532211   12467788888999999


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCH----hhHHHHHHHHHhcCCHHHHHH
Q 012126          217 ISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDT----LSYTTLLNSLCRKKKLREAYK  292 (470)
Q Consensus       217 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~  292 (470)
                      +++|..+|+++.+.. ..+..++..++..+.+.|++++|++.++.+.+.+..++.    ..+..+...+.+.|++++|..
T Consensus       123 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  201 (389)
T PRK11788        123 LDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARA  201 (389)
T ss_pred             HHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            999999999988763 336778888999999999999999999998876544322    245567778888999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 012126          293 LLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF  372 (470)
Q Consensus       293 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  372 (470)
                      .|+++.+.. +.+...+..+...+.+.|++++|.++++++.+.+......++..++.+|...|++++|...++++.+.  
T Consensus       202 ~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--  278 (389)
T PRK11788        202 LLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--  278 (389)
T ss_pred             HHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--
Confidence            999998763 33456777888999999999999999999987543223466788899999999999999999999886  


Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc---CCcHHHHHHHHHHHHHccccCCceee
Q 012126          373 SPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICA---GEEMEKLGEVLNEIVKVEIKGDTRIV  449 (470)
Q Consensus       373 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~~p~~~~~  449 (470)
                      .|+...+..++..+.+.|++++|..+++++++.  .|+..++..++..+..   .|+.+++..++++|.+.++.|++...
T Consensus       279 ~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~~~  356 (389)
T PRK11788        279 YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPRYR  356 (389)
T ss_pred             CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCCEE
Confidence            466667788899999999999999999999885  4888899888887764   56899999999999998888887644

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.91  E-value=5.3e-21  Score=181.11  Aligned_cols=302  Identities=15%  Similarity=0.089  Sum_probs=241.2

Q ss_pred             HHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCH---HHHHHHHHHHHhcC
Q 012126          103 LKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLP---KQLNRILELLVTHR  179 (470)
Q Consensus       103 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~ll~~~~~~~  179 (470)
                      ..+...|++++|...+.++.+.+ |.+..++..+...+...|++++|..+++.+...+..++.   ..+..+ ...+...
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~L-a~~~~~~  120 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQEL-GQDYLKA  120 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHH-HHHHHHC
Confidence            34567788999999999998875 556778888999999999999999999988875322221   223333 3344466


Q ss_pred             CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHHcCChHHH
Q 012126          180 NYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDV----ESYRILMQGLCRKSQVNRA  255 (470)
Q Consensus       180 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a  255 (470)
                      |++++|..+|+++.+... .+..+++.++..+.+.|++++|.+.++.+.+.+..++.    ..+..+...+.+.|++++|
T Consensus       121 g~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  199 (389)
T PRK11788        121 GLLDRAEELFLQLVDEGD-FAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAA  199 (389)
T ss_pred             CCHHHHHHHHHHHHcCCc-chHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHH
Confidence            779999999999987643 46788999999999999999999999999887644322    2355677788899999999


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhC
Q 012126          256 VDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSN  335 (470)
Q Consensus       256 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  335 (470)
                      +..|+++.+.... +...+..+...+.+.|++++|.++++++.+.+......+++.++.+|.+.|++++|...++++.+.
T Consensus       200 ~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        200 RALLKKALAADPQ-CVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHHHHhHCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999876533 566788888999999999999999999987632222456888999999999999999999998885


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc---cCCHHHHHHHHHHHHHCCCCCCHH
Q 012126          336 GCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCN---VGKVDEACGVLEELLKAGEAPHED  412 (470)
Q Consensus       336 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~---~g~~~~a~~~~~~~~~~~~~p~~~  412 (470)
                        .|+...+..++..+.+.|++++|..+++++.+.  .|+...++.++..+..   .|+.+++..++++|.+.++.|++.
T Consensus       279 --~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        279 --YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             --CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence              466667788899999999999999999998885  6888888888877664   568999999999999887777766

>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=2e-18  Score=172.19  Aligned_cols=368  Identities=13%  Similarity=0.004  Sum_probs=286.6

Q ss_pred             HHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC
Q 012126           65 VQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESN  144 (470)
Q Consensus        65 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  144 (470)
                      .+..+...|+++.|+..|+.+...   .|++..|..+...+.+.|++++|.+.+....+.. |.+..++..+..+|...|
T Consensus       133 ~G~~~~~~~~~~~Ai~~y~~al~~---~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg  208 (615)
T TIGR00990       133 KGNKAYRNKDFNKAIKLYSKAIEC---KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLG  208 (615)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcC
Confidence            345667789999999999998865   3567889999999999999999999999998876 667889999999999999


Q ss_pred             CchhHHHHHHHHHhCCC----------------------------c----cCHHHHHHHHHH------------------
Q 012126          145 LPDRALKTFRSMLEFNC----------------------------K----PLPKQLNRILEL------------------  174 (470)
Q Consensus       145 ~~~~A~~~~~~~~~~~~----------------------------~----p~~~~~~~ll~~------------------  174 (470)
                      ++++|+.-|..+...+-                            .    |........+..                  
T Consensus       209 ~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  288 (615)
T TIGR00990       209 KYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDE  288 (615)
T ss_pred             CHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccccc
Confidence            99999876654432110                            0    000000000000                  


Q ss_pred             ---------H-----HhcCCChhhHHHHHHHHHHCC-CCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHH
Q 012126          175 ---------L-----VTHRNYLRPAFDLFKSAHKHG-VLP-NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVES  238 (470)
Q Consensus       175 ---------~-----~~~~~~~~~a~~~~~~~~~~~-~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  238 (470)
                               .     ....+.+++|...|+...+.+ ..| +...|+.+...+...|++++|+..|++.++.... +...
T Consensus       289 ~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-~~~~  367 (615)
T TIGR00990       289 ETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-VTQS  367 (615)
T ss_pred             ccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHH
Confidence                     0     012245788999999998765 223 4567888889999999999999999999887433 4668


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 012126          239 YRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCR  318 (470)
Q Consensus       239 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  318 (470)
                      |..+...+...|++++|+..|+++.+.... +..++..+...+...|++++|...|++..+.. +.+...+..+...+.+
T Consensus       368 ~~~la~~~~~~g~~~eA~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~  445 (615)
T TIGR00990       368 YIKRASMNLELGDPDKAEEDFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYK  445 (615)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHH
Confidence            888899999999999999999999887544 67888899999999999999999999998873 3356778888899999


Q ss_pred             cCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHccCCH
Q 012126          319 EGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHF------SVSHALIKGFCNVGKV  392 (470)
Q Consensus       319 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~~~~~g~~  392 (470)
                      .|++++|+..|++..+.. +.+...++.+...+...|++++|.+.|++.++..-..+.      ..++.....+...|++
T Consensus       446 ~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~  524 (615)
T TIGR00990       446 EGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDF  524 (615)
T ss_pred             CCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhH
Confidence            999999999999988752 335778888999999999999999999999875321111      1222223334457999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcc
Q 012126          393 DEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       393 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      ++|.+++++.++.+. .+...+..+...+.+.|++++|++.|++..+..
T Consensus       525 ~eA~~~~~kAl~l~p-~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       525 IEAENLCEKALIIDP-ECDIAVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            999999999888652 244578899999999999999999999998653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.89  E-value=1.7e-18  Score=172.17  Aligned_cols=331  Identities=10%  Similarity=0.027  Sum_probs=250.1

Q ss_pred             HHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHc
Q 012126           64 RVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAES  143 (470)
Q Consensus        64 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  143 (470)
                      .+...+...|++..|+.+++.+....  +.+...+..++..+...|++++|...++.+.... |.+...+..+...+...
T Consensus        47 ~~~~~~~~~g~~~~A~~l~~~~l~~~--p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~  123 (656)
T PRK15174         47 LFAIACLRKDETDVGLTLLSDRVLTA--KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKS  123 (656)
T ss_pred             HHHHHHHhcCCcchhHHHhHHHHHhC--CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHc
Confidence            44556677899999999988887654  3445566666667777899999999999988875 66778888888899999


Q ss_pred             CCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 012126          144 NLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTL  223 (470)
Q Consensus       144 g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  223 (470)
                      |++++|++.++++..  ..|+.......+..++...|+.++|...++.+...... +...+..+ ..+...|++++|..+
T Consensus       124 g~~~~Ai~~l~~Al~--l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~  199 (656)
T PRK15174        124 KQYATVADLAEQAWL--AFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDL  199 (656)
T ss_pred             CCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHH
Confidence            999999999998887  35665555555555566777889999999888765533 33333333 347788999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH----HHHHHHHHHH
Q 012126          224 FNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLRE----AYKLLCRMKV  299 (470)
Q Consensus       224 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~----a~~~~~~m~~  299 (470)
                      ++.+.+....++...+..+..++...|++++|+..++++...... +...+..+..++...|++++    |...|++..+
T Consensus       200 ~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~  278 (656)
T PRK15174        200 ARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQ  278 (656)
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHh
Confidence            988877654445555556677888889999999999998877544 66777788888888898885    7888888887


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HH
Q 012126          300 KGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHF-SV  378 (470)
Q Consensus       300 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~  378 (470)
                      .. +.+...+..+...+.+.|++++|+..+++..+.. +.+...+..+..++.+.|++++|...++.+.+.  .|+. ..
T Consensus       279 l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~  354 (656)
T PRK15174        279 FN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSKW  354 (656)
T ss_pred             hC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHH
Confidence            63 3356778888888899999999999999888753 224556677788888899999999999888875  3443 33


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 012126          379 SHALIKGFCNVGKVDEACGVLEELLKAG  406 (470)
Q Consensus       379 ~~~li~~~~~~g~~~~a~~~~~~~~~~~  406 (470)
                      +..+..++...|+.++|...|++..+..
T Consensus       355 ~~~~a~al~~~G~~deA~~~l~~al~~~  382 (656)
T PRK15174        355 NRYAAAALLQAGKTSEAESVFEHYIQAR  382 (656)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            4445667888899999999999887753

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

Probab=99.89  E-value=6.2e-20  Score=167.21  Aligned_cols=365  Identities=12%  Similarity=0.064  Sum_probs=260.5

Q ss_pred             HHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC
Q 012126           65 VQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESN  144 (470)
Q Consensus        65 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  144 (470)
                      +..+++..|+...|+.+++.+.+..  +...+.|..+..++...|+.+.|.+.|....+.. |....+...+.......|
T Consensus       122 ~aN~~kerg~~~~al~~y~~aiel~--p~fida~inla~al~~~~~~~~a~~~~~~alqln-P~l~ca~s~lgnLlka~G  198 (966)
T KOG4626|consen  122 LANILKERGQLQDALALYRAAIELK--PKFIDAYINLAAALVTQGDLELAVQCFFEALQLN-PDLYCARSDLGNLLKAEG  198 (966)
T ss_pred             HHHHHHHhchHHHHHHHHHHHHhcC--chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC-cchhhhhcchhHHHHhhc
Confidence            4555666666666666666665443  2345566666666666666666666666665543 222223333445555566


Q ss_pred             CchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHH
Q 012126          145 LPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLF  224 (470)
Q Consensus       145 ~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  224 (470)
                      +..+|...|.+.++  ..|.-...-+-|.......|+...|+..|++..+.+.. =...|..|...|...+.+++|...|
T Consensus       199 rl~ea~~cYlkAi~--~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~~~d~Avs~Y  275 (966)
T KOG4626|consen  199 RLEEAKACYLKAIE--TQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEARIFDRAVSCY  275 (966)
T ss_pred             ccchhHHHHHHHHh--hCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHhcchHHHHHH
Confidence            66666666666655  23333222222333344556666777777776665421 2456677777777777777777777


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 012126          225 NKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNP  304 (470)
Q Consensus       225 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~  304 (470)
                      .+....... ....+..+...|...|+.+.|+..|++.++..+. -...|+.|..++-..|++.+|++.+.+..... .-
T Consensus       276 ~rAl~lrpn-~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~  352 (966)
T KOG4626|consen  276 LRALNLRPN-HAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PN  352 (966)
T ss_pred             HHHHhcCCc-chhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhC-Cc
Confidence            766554322 4566666777777888888888888888876443 35789999999999999999999999988763 22


Q ss_pred             CHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 012126          305 DIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN-LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH-FSVSHAL  382 (470)
Q Consensus       305 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l  382 (470)
                      -..+.+.|...|.+.|.+++|..+|....+-  .|. ....+.|...|.+.|++++|+..+++.++  +.|+ ...|+.+
T Consensus       353 hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~Nm  428 (966)
T KOG4626|consen  353 HADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNM  428 (966)
T ss_pred             cHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhc
Confidence            4677888999999999999999999988773  344 45678899999999999999999999988  5666 4588899


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCc
Q 012126          383 IKGFCNVGKVDEACGVLEELLKAGEAPH-EDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDT  446 (470)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  446 (470)
                      ...|-..|+.+.|.+.+.+.+..+  |. .+.++.|...|...|+..+|++-+++.++  ++||.
T Consensus       429 Gnt~ke~g~v~~A~q~y~rAI~~n--Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDf  489 (966)
T KOG4626|consen  429 GNTYKEMGDVSAAIQCYTRAIQIN--PTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDF  489 (966)
T ss_pred             chHHHHhhhHHHHHHHHHHHHhcC--cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCC
Confidence            999999999999999999998844  55 45888999999999999999999999995  55654

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.88  E-value=1.9e-18  Score=171.85  Aligned_cols=361  Identities=12%  Similarity=0.063  Sum_probs=285.8

Q ss_pred             hcCCChHHHHHHHHHhhcCC-CCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchh
Q 012126           70 ASQSDPLLAKEIFDYASRQP-NFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDR  148 (470)
Q Consensus        70 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  148 (470)
                      .++.||+.---.|....... .-..+......++..+.+.|++++|..++....... |-+...+..++.+....|++++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~-p~~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTA-KNGRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhC-CCchhHHHHHhhhHhhcCCHHH
Confidence            45666665544444332211 101233345667788999999999999999998775 6677778888888889999999


Q ss_pred             HHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHH
Q 012126          149 ALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMF  228 (470)
Q Consensus       149 A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  228 (470)
                      |++.|+++..  ..|+.......+...+...|++++|...+++..+... .+...+..+...+...|++++|...++.+.
T Consensus        95 A~~~l~~~l~--~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P-~~~~a~~~la~~l~~~g~~~eA~~~~~~~~  171 (656)
T PRK15174         95 VLQVVNKLLA--VNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFS-GNSQIFALHLRTLVLMDKELQAISLARTQA  171 (656)
T ss_pred             HHHHHHHHHH--hCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence            9999999998  4577666666777777788889999999999998653 267788899999999999999999999887


Q ss_pred             HCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHH
Q 012126          229 ERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVH  308 (470)
Q Consensus       229 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~  308 (470)
                      ..... +...+..+ ..+...|++++|+..++.+.+....++...+..+..++.+.|++++|...+++..... +.+...
T Consensus       172 ~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~  248 (656)
T PRK15174        172 QEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAAL  248 (656)
T ss_pred             HhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHH
Confidence            76544 33344333 3478899999999999998877544455556666788899999999999999998874 345778


Q ss_pred             HHHHHHHHHhcCCHhH----HHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          309 YNTVVLGFCREGRAID----ACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIK  384 (470)
Q Consensus       309 ~~~li~~~~~~~~~~~----a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  384 (470)
                      +..+...+.+.|++++    |...+++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+..
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~  326 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYAR  326 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            8889999999999986    899999988853 2356788889999999999999999999999864 345667788889


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHcCCcHHHHHHHHHHHHHcc
Q 012126          385 GFCNVGKVDEACGVLEELLKAGEAPHED-TWVMIVPQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       385 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      ++.+.|++++|...|+++.+.+  |+.. .+..+..++...|+.++|...|++.++..
T Consensus       327 ~l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~  382 (656)
T PRK15174        327 ALRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQAR  382 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            9999999999999999998854  5543 34445678899999999999999998654

>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=1.6e-19  Score=164.57  Aligned_cols=366  Identities=13%  Similarity=0.067  Sum_probs=308.2

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhcCCCC--------------------------------CCCHHHHHHHHHHHHccCC
Q 012126           63 CRVQKLIASQSDPLLAKEIFDYASRQPNF--------------------------------RHSNSTYLILILKLGRAKY  110 (470)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------------------------------~~~~~~~~~ll~~~~~~~~  110 (470)
                      ..+...+-+.||+.+|.+....+-+.++.                                +.-.++|..+...+-..|+
T Consensus        52 l~lah~~yq~gd~~~a~~h~nmv~~~d~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~  131 (966)
T KOG4626|consen   52 LELAHRLYQGGDYKQAEKHCNMVGQEDPTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQ  131 (966)
T ss_pred             HHHHHHHHhccCHHHHHHHHhHhhccCCCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhch
Confidence            34445556778888888776655332210                                1123578888899999999


Q ss_pred             chHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHH
Q 012126          111 FSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFK  190 (470)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~  190 (470)
                      ++.|..+++.+++.. |.....|..+..++...|+.+.|.+.|.+.++  +.|+.....+-+..+.+..|++++|...|.
T Consensus       132 ~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgnLlka~Grl~ea~~cYl  208 (966)
T KOG4626|consen  132 LQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGNLLKAEGRLEEAKACYL  208 (966)
T ss_pred             HHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhHHHHhhcccchhHHHHH
Confidence            999999999999886 66788999999999999999999999999988  569888888889999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC
Q 012126          191 SAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPD  270 (470)
Q Consensus       191 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  270 (470)
                      +.++.... =.+.|..|...+-..|++..|+..|++..+..+. -...|-.|...|...+.+++|...|.+....... .
T Consensus       209 kAi~~qp~-fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn-~  285 (966)
T KOG4626|consen  209 KAIETQPC-FAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEARIFDRAVSCYLRALNLRPN-H  285 (966)
T ss_pred             HHHhhCCc-eeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCc-c
Confidence            98876432 3567999999999999999999999999887533 3578888999999999999999999998876433 5


Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHH
Q 012126          271 TLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPD-IVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVG  349 (470)
Q Consensus       271 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  349 (470)
                      ..++..+...|...|.++.|++.+++.++.  .|+ ...|+.|..++-..|++.+|.+.|++..... .-.....+.|..
T Consensus       286 A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgn  362 (966)
T KOG4626|consen  286 AVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGN  362 (966)
T ss_pred             hhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHH
Confidence            678888888999999999999999999886  455 6789999999999999999999999988852 234567888999


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHcCCcH
Q 012126          350 GLCDQGMFDVAKKYMQLMISKGFSPH-FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHE-DTWVMIVPQICAGEEM  427 (470)
Q Consensus       350 ~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~  427 (470)
                      .+...|.+++|..+|....+-  .|. ....+.|...|-..|++++|...|++.++  ++|+. ..|+.+...|-..|+.
T Consensus       363 i~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  363 IYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhH
Confidence            999999999999999999884  444 45788999999999999999999999998  66775 5899999999999999


Q ss_pred             HHHHHHHHHHHHcc
Q 012126          428 EKLGEVLNEIVKVE  441 (470)
Q Consensus       428 ~~a~~~~~~m~~~~  441 (470)
                      +.|.+.+...+..+
T Consensus       439 ~~A~q~y~rAI~~n  452 (966)
T KOG4626|consen  439 SAAIQCYTRAIQIN  452 (966)
T ss_pred             HHHHHHHHHHHhcC
Confidence            99999999998543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.86  E-value=2.5e-17  Score=174.92  Aligned_cols=361  Identities=13%  Similarity=0.006  Sum_probs=214.3

Q ss_pred             HHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCC-CHHHH-----------
Q 012126           66 QKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPV-TPSLF-----------  133 (470)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~-----------  133 (470)
                      ...+...|+++.|+..|+.+....  +.+...+..+...+.+.|++++|...|++..+..-.. ....+           
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~--P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~  353 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRAN--PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWL  353 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHH
Confidence            455677899999999999887654  4577888888999999999999999999887764111 11111           


Q ss_pred             -HHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHH-
Q 012126          134 -TYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAF-  211 (470)
Q Consensus       134 -~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-  211 (470)
                       ..+...+.+.|++++|++.|+++.+.  .|+.......+..++...|++++|++.|+++.+.... +...+..+...| 
T Consensus       354 ~~~~g~~~~~~g~~~eA~~~~~~Al~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~  430 (1157)
T PRK11447        354 LIQQGDAALKANNLAQAERLYQQARQV--DNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYR  430 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence             12345677889999999999998874  4555444445566666778899999999998876532 344444444433 


Q ss_pred             -----------------------------------------HhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 012126          212 -----------------------------------------CFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKS  250 (470)
Q Consensus       212 -----------------------------------------~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  250 (470)
                                                               ...|++++|.+.|++..+..+. +...+..+...|.+.|
T Consensus       431 ~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G  509 (1157)
T PRK11447        431 QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAG  509 (1157)
T ss_pred             hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcC
Confidence                                                     3345555555555555544322 3344444555555555


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH---------HHHHHHHHHHhcCC
Q 012126          251 QVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIV---------HYNTVVLGFCREGR  321 (470)
Q Consensus       251 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---------~~~~li~~~~~~~~  321 (470)
                      ++++|+..++++.+.... +...+..+...+...++.++|...++.+......++..         .+..+...+...|+
T Consensus       510 ~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~  588 (1157)
T PRK11447        510 QRSQADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGK  588 (1157)
T ss_pred             CHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCC
Confidence            555555555555443222 22222222223333444444444444332111111100         01122333445555


Q ss_pred             HhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 012126          322 AIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEE  401 (470)
Q Consensus       322 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  401 (470)
                      .++|..+++.     .+.+...+..+...+.+.|++++|+..++++++.. +.+...+..+...|...|++++|.+.++.
T Consensus       589 ~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~  662 (1157)
T PRK11447        589 EAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAK  662 (1157)
T ss_pred             HHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5555555541     12344455566667777777777777777777653 33556677777777777777777777776


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          402 LLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       402 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      ..+.. +.+...+..+..++...|++++|.++++++++.
T Consensus       663 ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        663 LPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            66532 123455566666777777777777777777654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.85  E-value=5.1e-17  Score=172.62  Aligned_cols=372  Identities=12%  Similarity=0.031  Sum_probs=282.0

Q ss_pred             ChHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHH------------HHHHHHHHccCCchHHHHHHHHHhhCCCCC
Q 012126           61 SPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTY------------LILILKLGRAKYFSLIDDILITLKSEHYPV  128 (470)
Q Consensus        61 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~------------~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  128 (470)
                      ....+..++...|++++|+..|+.+.+...-.+....+            ......+.+.|++++|...++++.... |.
T Consensus       305 a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~  383 (1157)
T PRK11447        305 ALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NT  383 (1157)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CC
Confidence            34566788889999999999999987643211221111            122456778999999999999998875 66


Q ss_pred             CHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCH-HHHHHHHH----------------------------------
Q 012126          129 TPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLP-KQLNRILE----------------------------------  173 (470)
Q Consensus       129 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~ll~----------------------------------  173 (470)
                      +...+..+..++...|++++|++.|+++.+..  |+. ..+..+..                                  
T Consensus       384 ~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~  461 (1157)
T PRK11447        384 DSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQN  461 (1157)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhh
Confidence            77888889999999999999999999988743  432 22211111                                  


Q ss_pred             -------HHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 012126          174 -------LLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGL  246 (470)
Q Consensus       174 -------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  246 (470)
                             ..+...|++++|+..|++..+.... +...+..+...|.+.|++++|...++++.+.... +...+..+...+
T Consensus       462 ~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~-~~~~~~a~al~l  539 (1157)
T PRK11447        462 DRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPN-DPEQVYAYGLYL  539 (1157)
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHH
Confidence                   1122467799999999999987643 6777888999999999999999999999876433 455555555667


Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCCHh---------hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 012126          247 CRKSQVNRAVDLLEDMLNKGFVPDTL---------SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFC  317 (470)
Q Consensus       247 ~~~~~~~~a~~~~~~~~~~~~~~~~~---------~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  317 (470)
                      ...++.++|+..++.+......++..         .+..+...+...|+.++|..+++.     .+.+...+..+...+.
T Consensus       540 ~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~  614 (1157)
T PRK11447        540 SGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQ  614 (1157)
T ss_pred             HhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHH
Confidence            78899999999998865433222221         123456678889999999999882     2446667788889999


Q ss_pred             hcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 012126          318 REGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACG  397 (470)
Q Consensus       318 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  397 (470)
                      +.|++++|+..|++..+.. +.+...+..++..+...|++++|++.++.+.+.. +.+...+..+..++...|++++|.+
T Consensus       615 ~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~  692 (1157)
T PRK11447        615 QRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQR  692 (1157)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHH
Confidence            9999999999999998863 3357788899999999999999999999887752 2345667778888999999999999


Q ss_pred             HHHHHHHCCCC--C---CHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-ccccC
Q 012126          398 VLEELLKAGEA--P---HEDTWVMIVPQICAGEEMEKLGEVLNEIVK-VEIKG  444 (470)
Q Consensus       398 ~~~~~~~~~~~--p---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-~~~~p  444 (470)
                      ++++++.....  |   +...+..+...+...|+.++|++.+++.+. .++.|
T Consensus       693 ~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~  745 (1157)
T PRK11447        693 TFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITP  745 (1157)
T ss_pred             HHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCC
Confidence            99999875322  2   224666778889999999999999999864 34443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.85  E-value=3.2e-16  Score=159.36  Aligned_cols=370  Identities=11%  Similarity=0.018  Sum_probs=238.5

Q ss_pred             HHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC
Q 012126           66 QKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNL  145 (470)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  145 (470)
                      ..+..-.|+.++|++++.......  +.+...+..+...+.+.|++++|..+++...+.. |.++..+..++..+...|+
T Consensus        22 ~~ia~~~g~~~~A~~~~~~~~~~~--~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~   98 (765)
T PRK10049         22 LQIALWAGQDAEVITVYNRYRVHM--QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQ   98 (765)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCC
Confidence            344555666666666666554322  2334455566666666666666666666655543 4445555556666666666


Q ss_pred             chhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh--------
Q 012126          146 PDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDI--------  217 (470)
Q Consensus       146 ~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~--------  217 (470)
                      +++|+..++++.+.  .|+... ...+..+....|+.++|+..++++.+..+. +...+..+...+...|..        
T Consensus        99 ~~eA~~~l~~~l~~--~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~~l~  174 (765)
T PRK10049         99 YDEALVKAKQLVSG--APDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALGAID  174 (765)
T ss_pred             HHHHHHHHHHHHHh--CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHHHHH
Confidence            66666666666553  333333 333344444555566666666666654432 333444444444444443        


Q ss_pred             --------------------------------------hHHHHHHHHHHHC-CCCCCHH-HH----HHHHHHHHHcCChH
Q 012126          218 --------------------------------------SIAYTLFNKMFER-GVMPDVE-SY----RILMQGLCRKSQVN  253 (470)
Q Consensus       218 --------------------------------------~~a~~~~~~m~~~-~~~p~~~-~~----~~ll~~~~~~~~~~  253 (470)
                                                            ++|++.++.+.+. ...|+.. .+    ...+.++...|+++
T Consensus       175 ~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~  254 (765)
T PRK10049        175 DANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYK  254 (765)
T ss_pred             hCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHH
Confidence                                                  3455555555533 1122211 11    11134456778999


Q ss_pred             HHHHHHHHHHhCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHhcCCHhHHHHHH
Q 012126          254 RAVDLLEDMLNKGFV-PDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNP---DIVHYNTVVLGFCREGRAIDACKVL  329 (470)
Q Consensus       254 ~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~  329 (470)
                      +|+..|+.+.+.+.. |+. .-..+..+|...|++++|+..|+++.+.....   .......+..++.+.|++++|..++
T Consensus       255 eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l  333 (765)
T PRK10049        255 DVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVT  333 (765)
T ss_pred             HHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            999999999887642 332 22335778999999999999999987652111   1244566677889999999999999


Q ss_pred             HhchhCCC-----------CCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHH
Q 012126          330 EDMPSNGC-----------LPN---LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEA  395 (470)
Q Consensus       330 ~~m~~~~~-----------~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  395 (470)
                      +.+.+...           .|+   ...+..+...+...|++++|+++++++.... +.+...+..+...+...|++++|
T Consensus       334 ~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A  412 (765)
T PRK10049        334 AHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAA  412 (765)
T ss_pred             HHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHH
Confidence            99876521           123   2245567778889999999999999998863 55677888999999999999999


Q ss_pred             HHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCcee
Q 012126          396 CGVLEELLKAGEAPH-EDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRI  448 (470)
Q Consensus       396 ~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  448 (470)
                      ++.+++.++..  |+ ...+..++..+...|++++|..+++++++.  .|+...
T Consensus       413 ~~~l~~al~l~--Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~--~Pd~~~  462 (765)
T PRK10049        413 ENELKKAEVLE--PRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR--EPQDPG  462 (765)
T ss_pred             HHHHHHHHhhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCCCHH
Confidence            99999998854  44 567777788889999999999999999864  455543

>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=99.83  E-value=2.6e-16  Score=157.10  Aligned_cols=342  Identities=11%  Similarity=-0.031  Sum_probs=255.5

Q ss_pred             HHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHH
Q 012126           97 TYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLV  176 (470)
Q Consensus        97 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~  176 (470)
                      .+......+.+.|++++|...|++.+...  |++..|..+..+|.+.|++++|++.++..++.  .|+.......+..++
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~~--p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l--~p~~~~a~~~~a~a~  204 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIECK--PDPVYYSNRAACHNALGDWEKVVEDTTAALEL--DPDYSKALNRRANAY  204 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHhCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHH
Confidence            35566778889999999999999988764  57888999999999999999999999999884  465544444445555


Q ss_pred             hcCCChhhHHHHHHHHHHCCCC----------------------------C----CHHHHHHH-----------------
Q 012126          177 THRNYLRPAFDLFKSAHKHGVL----------------------------P----NTKSYNIM-----------------  207 (470)
Q Consensus       177 ~~~~~~~~a~~~~~~~~~~~~~----------------------------~----~~~~~~~l-----------------  207 (470)
                      ...|++++|+..|......+..                            |    ........                 
T Consensus       205 ~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  284 (615)
T TIGR00990       205 DGLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSN  284 (615)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccc
Confidence            5777788887766544322110                            0    00000000                 


Q ss_pred             ----------HHHH------HhcCChhHHHHHHHHHHHCC-CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC
Q 012126          208 ----------MRAF------CFNGDISIAYTLFNKMFERG-VMP-DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVP  269 (470)
Q Consensus       208 ----------i~~~------~~~g~~~~a~~~~~~m~~~~-~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  269 (470)
                                +..+      ...+++++|.+.|++..+.+ ..| ....+..+...+...|++++|+..+++..+.... 
T Consensus       285 ~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-  363 (615)
T TIGR00990       285 ELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-  363 (615)
T ss_pred             ccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-
Confidence                      0000      12357889999999988765 223 4567888888899999999999999999887543 


Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHH
Q 012126          270 DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVG  349 (470)
Q Consensus       270 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  349 (470)
                      +...|..+..++...|++++|...|++..+.. +.+...|..+...+...|++++|+..|++..+.. +.+...+..+..
T Consensus       364 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~  441 (615)
T TIGR00990       364 VTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGV  441 (615)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHH
Confidence            46678888899999999999999999998763 3457888899999999999999999999998853 235667778888


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHH------HHHHHHHHHHc
Q 012126          350 GLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHED------TWVMIVPQICA  423 (470)
Q Consensus       350 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~------~~~~l~~~~~~  423 (470)
                      .+.+.|++++|+..+++.++. .+.+...++.+...+...|++++|.+.|++.++.....+..      .++..+..+..
T Consensus       442 ~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~  520 (615)
T TIGR00990       442 TQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQW  520 (615)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHH
Confidence            999999999999999999875 24457889999999999999999999999998753221111      11222223445


Q ss_pred             CCcHHHHHHHHHHHHHccccCCcee
Q 012126          424 GEEMEKLGEVLNEIVKVEIKGDTRI  448 (470)
Q Consensus       424 ~g~~~~a~~~~~~m~~~~~~p~~~~  448 (470)
                      .|++++|.+++++.++.  .|+...
T Consensus       521 ~~~~~eA~~~~~kAl~l--~p~~~~  543 (615)
T TIGR00990       521 KQDFIEAENLCEKALII--DPECDI  543 (615)
T ss_pred             hhhHHHHHHHHHHHHhc--CCCcHH
Confidence            79999999999999865  455544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.80  E-value=8.5e-15  Score=146.44  Aligned_cols=363  Identities=13%  Similarity=0.102  Sum_probs=161.9

Q ss_pred             HHHHhcCCChHHHHHHHHHhhcCCCCCCCH-HHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC
Q 012126           66 QKLIASQSDPLLAKEIFDYASRQPNFRHSN-STYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESN  144 (470)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  144 (470)
                      ..+..++|++..|++.|+.+.+..  +.+. ..+ .++..+...|+.++|...+++..... +........+...|...|
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~g  116 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEK  116 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcC
Confidence            344455666666666666555433  1111 122 44455555566666666555555211 222233333344555556


Q ss_pred             CchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHH
Q 012126          145 LPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLF  224 (470)
Q Consensus       145 ~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  224 (470)
                      ++++|+++|+++.+.  .|+.......+...+...+..++|++.++++....  |+...+..++..+...++..+|++.+
T Consensus       117 dyd~Aiely~kaL~~--dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~~  192 (822)
T PRK14574        117 RWDQALALWQSSLKK--DPTNPDLISGMIMTQADAGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQAS  192 (822)
T ss_pred             CHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHHH
Confidence            666666666665553  23322222222233333444555555555555442  33333323333333334443455555


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHH--------------------------------------------
Q 012126          225 NKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLE--------------------------------------------  260 (470)
Q Consensus       225 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~--------------------------------------------  260 (470)
                      +++.+..+. +...+..++.+..+.|-...|.++..                                            
T Consensus       193 ekll~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~al  271 (822)
T PRK14574        193 SEAVRLAPT-SEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKAL  271 (822)
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHH
Confidence            555554322 33333333333333333222222221                                            


Q ss_pred             ----HHHhC-CCCCCH-hhH-H---HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHH
Q 012126          261 ----DMLNK-GFVPDT-LSY-T---TLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLE  330 (470)
Q Consensus       261 ----~~~~~-~~~~~~-~~~-~---~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  330 (470)
                          .+... +..|.. ..| .   -.+-++...|++.++++.++.+...|.+....+-..+..+|...+++++|+.+++
T Consensus       272 a~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~  351 (822)
T PRK14574        272 ADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILS  351 (822)
T ss_pred             HHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHH
Confidence                11110 011111 001 1   1122344455555555555555555544344455555555555555555555555


Q ss_pred             hchhCC-----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-----------CCC---HHHHHHHHHHHHccCC
Q 012126          331 DMPSNG-----CLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF-----------SPH---FSVSHALIKGFCNVGK  391 (470)
Q Consensus       331 ~m~~~~-----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~li~~~~~~g~  391 (470)
                      .+....     ..++......|..++...+++++|..+++.+.+...           .||   ...+..++..+...|+
T Consensus       352 ~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gd  431 (822)
T PRK14574        352 SLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALND  431 (822)
T ss_pred             HHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCC
Confidence            554321     111222234455555555555555555555554200           111   1122233444555555


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Q 012126          392 VDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       392 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  438 (470)
                      +.+|++.++++.... +-|......+...+...|.+.+|.+.++.+.
T Consensus       432 l~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~  477 (822)
T PRK14574        432 LPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVE  477 (822)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Confidence            555555555555443 2244555555555555555555555554444

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.79  E-value=4.9e-15  Score=150.71  Aligned_cols=355  Identities=12%  Similarity=0.029  Sum_probs=261.4

Q ss_pred             CCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHH
Q 012126           92 RHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRI  171 (470)
Q Consensus        92 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l  171 (470)
                      +.++.-..-.+......|+.++|++++....... +.+...+..+...+...|++++|.+.|++.++.  .|+.......
T Consensus        12 ~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~   88 (765)
T PRK10049         12 ALSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRG   88 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            4566666677778899999999999999998643 567778999999999999999999999998874  4655555555


Q ss_pred             HHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 012126          172 LELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQ  251 (470)
Q Consensus       172 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  251 (470)
                      +..+....|+.++|...++++.+.... +.. +..+..++...|+.++|+..++++.+..+. +...+..+..++...+.
T Consensus        89 la~~l~~~g~~~eA~~~l~~~l~~~P~-~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~  165 (765)
T PRK10049         89 LILTLADAGQYDEALVKAKQLVSGAPD-KAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRL  165 (765)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCC-CHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCC
Confidence            555555778899999999999987533 556 888899999999999999999999987554 55555566666666666


Q ss_pred             hHHHHHHH----------------------------------------------HHHHhC-CCCCCHh-hHH----HHHH
Q 012126          252 VNRAVDLL----------------------------------------------EDMLNK-GFVPDTL-SYT----TLLN  279 (470)
Q Consensus       252 ~~~a~~~~----------------------------------------------~~~~~~-~~~~~~~-~~~----~ll~  279 (470)
                      .+.|++.+                                              +.+.+. ...|+.. .+.    ..+.
T Consensus       166 ~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~  245 (765)
T PRK10049        166 SAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLG  245 (765)
T ss_pred             hHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHH
Confidence            55544443                                              333322 1112211 111    1123


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCC---CHHHHHHHHHHHHhcC
Q 012126          280 SLCRKKKLREAYKLLCRMKVKGCN-PDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLP---NLVSYRTLVGGLCDQG  355 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g  355 (470)
                      ++...|++++|+..|+.+.+.+.+ |+. .-..+...|...|++++|+..|+++.+.....   .......+..++...|
T Consensus       246 ~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g  324 (765)
T PRK10049        246 ALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESE  324 (765)
T ss_pred             HHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcc
Confidence            445779999999999999887532 322 22225678999999999999999987643111   1345666777889999


Q ss_pred             ChHHHHHHHHHHHHCCC-----------CCC---HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 012126          356 MFDVAKKYMQLMISKGF-----------SPH---FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQI  421 (470)
Q Consensus       356 ~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  421 (470)
                      ++++|..+++.+.+..-           .|+   ...+..+...+...|++++|+++++++.... +-+...+..+...+
T Consensus       325 ~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~  403 (765)
T PRK10049        325 NYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVL  403 (765)
T ss_pred             cHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            99999999999987521           123   2345567778889999999999999998864 34677889999999


Q ss_pred             HcCCcHHHHHHHHHHHHHccccCCceeeecccchh
Q 012126          422 CAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLE  456 (470)
Q Consensus       422 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~  456 (470)
                      ...|++++|++.++++++  ..||...+.......
T Consensus       404 ~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~a~~  436 (765)
T PRK10049        404 QARGWPRAAENELKKAEV--LEPRNINLEVEQAWT  436 (765)
T ss_pred             HhcCCHHHHHHHHHHHHh--hCCCChHHHHHHHHH
Confidence            999999999999999995  457765554444443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.78  E-value=2.8e-14  Score=142.80  Aligned_cols=373  Identities=12%  Similarity=0.069  Sum_probs=282.0

Q ss_pred             HHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHc
Q 012126           64 RVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAES  143 (470)
Q Consensus        64 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  143 (470)
                      .+..++...|+.++|+..++... .+. +........+...+...|++++|.++++++.+.. |.++.++..++..|...
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~-~p~-n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~  149 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQ-SSM-NISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADA  149 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhc-cCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhc
Confidence            55677778899999999999987 221 3344455555678888999999999999999886 66788888899999999


Q ss_pred             CCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 012126          144 NLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTL  223 (470)
Q Consensus       144 g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  223 (470)
                      ++.++|++.++++...  .|+...+ ..+..+....+...+|++.++++.+.... +...+..+...+.+.|-...|.++
T Consensus       150 ~q~~eAl~~l~~l~~~--dp~~~~~-l~layL~~~~~~~~~AL~~~ekll~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l  225 (822)
T PRK14574        150 GRGGVVLKQATELAER--DPTVQNY-MTLSYLNRATDRNYDALQASSEAVRLAPT-SEEVLKNHLEILQRNRIVEPALRL  225 (822)
T ss_pred             CCHHHHHHHHHHhccc--CcchHHH-HHHHHHHHhcchHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCcHHHHHH
Confidence            9999999999999874  4666666 33333333344455699999999987633 566666666777666655444443


Q ss_pred             HH------------------------------------------------HHHHC-CCCCCHH-----HHHHHHHHHHHc
Q 012126          224 FN------------------------------------------------KMFER-GVMPDVE-----SYRILMQGLCRK  249 (470)
Q Consensus       224 ~~------------------------------------------------~m~~~-~~~p~~~-----~~~~ll~~~~~~  249 (470)
                      ..                                                .+... +..|...     ..--.+.++...
T Consensus       226 ~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r  305 (822)
T PRK14574        226 AKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVR  305 (822)
T ss_pred             HHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHh
Confidence            33                                                22221 1112211     122345677788


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-----CCCCHHHHHHHHHHHHhcCCHhH
Q 012126          250 SQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKG-----CNPDIVHYNTVVLGFCREGRAID  324 (470)
Q Consensus       250 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-----~~~~~~~~~~li~~~~~~~~~~~  324 (470)
                      ++..++++.|+.+...+......+-..+.++|...+.+++|..+++.+....     ..++......|.-+|...+++++
T Consensus       306 ~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~  385 (822)
T PRK14574        306 HQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDK  385 (822)
T ss_pred             hhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHH
Confidence            9999999999999998876667788899999999999999999999997642     12344446788999999999999


Q ss_pred             HHHHHHhchhCCC-----------CC--CH-HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 012126          325 ACKVLEDMPSNGC-----------LP--NL-VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVG  390 (470)
Q Consensus       325 a~~~~~~m~~~~~-----------~p--~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  390 (470)
                      |..+++.+.+...           .|  |- ..+..++..+...|++.+|++.++++.... +-|..+...+.+.+...|
T Consensus       386 A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg  464 (822)
T PRK14574        386 AYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARD  464 (822)
T ss_pred             HHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            9999999987311           12  22 234455777889999999999999998764 668889999999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCce
Q 012126          391 KVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTR  447 (470)
Q Consensus       391 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  447 (470)
                      .+.+|++.++...... +-+..+....+.++...|++++|..+.+...+.  .|+..
T Consensus       465 ~p~~A~~~~k~a~~l~-P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~--~Pe~~  518 (822)
T PRK14574        465 LPRKAEQELKAVESLA-PRSLILERAQAETAMALQEWHQMELLTDDVISR--SPEDI  518 (822)
T ss_pred             CHHHHHHHHHHHhhhC-CccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--CCCch
Confidence            9999999998776653 235567788888999999999999999998853  45554

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.74  E-value=8.5e-14  Score=122.32  Aligned_cols=376  Identities=15%  Similarity=0.157  Sum_probs=270.5

Q ss_pred             hcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHH--ccCCchHH-HHHHHHHh-------------------hCCCC
Q 012126           70 ASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLG--RAKYFSLI-DDILITLK-------------------SEHYP  127 (470)
Q Consensus        70 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~~a-~~~~~~~~-------------------~~~~~  127 (470)
                      .+++....+.-+++.+.+.+ ++.++..-..+++.-+  ...+.--+ ++.|-.|.                   -.-.|
T Consensus       126 IS~~EvKDs~ilY~~m~~e~-~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vAdL~~E~~P  204 (625)
T KOG4422|consen  126 ISSREVKDSCILYERMRSEN-VDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVADLLFETLP  204 (625)
T ss_pred             HhhcccchhHHHHHHHHhcC-CCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHHHHHHhhcC
Confidence            45677888888888887543 4556655444433221  11111111 11111111                   11235


Q ss_pred             CCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHH
Q 012126          128 VTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIM  207 (470)
Q Consensus       128 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  207 (470)
                      .++.++..+|.+.++-...+.|.+++++......+.+..++|.++.+.....|     .+++.+|....+.||..|+|++
T Consensus       205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~-----K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  205 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG-----KKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc-----HHHHHHHHHhhcCCchHhHHHH
Confidence            67899999999999999999999999999988889999999999998874444     7899999999999999999999


Q ss_pred             HHHHHhcCChhHH----HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHH-HHHHHHHHHhC----CCC----CCHhhH
Q 012126          208 MRAFCFNGDISIA----YTLFNKMFERGVMPDVESYRILMQGLCRKSQVNR-AVDLLEDMLNK----GFV----PDTLSY  274 (470)
Q Consensus       208 i~~~~~~g~~~~a----~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~~~----~~~----~~~~~~  274 (470)
                      +++..+.|+++.|    .+++.+|++.|+.|...+|..+|..+++.++..+ +..++.++...    .++    .|...|
T Consensus       280 L~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF  359 (625)
T KOG4422|consen  280 LSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFF  359 (625)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHH
Confidence            9999999988654    6778889999999999999999999999988744 55555555432    222    256678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcC----CCCC---HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHH
Q 012126          275 TTLLNSLCRKKKLREAYKLLCRMKVKG----CNPD---IVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTL  347 (470)
Q Consensus       275 ~~ll~~~~~~~~~~~a~~~~~~m~~~~----~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  347 (470)
                      ...+..|....|.+.|.++..-+....    +.|+   ..-|..+....|+....+.-...|+.|.-.-.-|+..+...+
T Consensus       360 ~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~  439 (625)
T KOG4422|consen  360 QSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHL  439 (625)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHH
Confidence            888899999999999998877665421    2222   233666778888999999999999999988778999999999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-CH--------HH-----HHHHH-------HHHHHCC
Q 012126          348 VGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVG-KV--------DE-----ACGVL-------EELLKAG  406 (470)
Q Consensus       348 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~--------~~-----a~~~~-------~~~~~~~  406 (470)
                      +++..-.|.++-.-++|..++..|...+...-.-++..+++.. ..        ..     |..++       .+|.+  
T Consensus       440 lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~--  517 (625)
T KOG4422|consen  440 LRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRA--  517 (625)
T ss_pred             HHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHh--
Confidence            9999999999999999999988876656555555555555544 11        11     11111       12222  


Q ss_pred             CCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcccc-CCceeeeccc
Q 012126          407 EAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIK-GDTRIVEAGI  453 (470)
Q Consensus       407 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~~~  453 (470)
                      ........+..+-.+.+.|..++|.+++.-+.+++-+ |-...+++++
T Consensus       518 ~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~  565 (625)
T KOG4422|consen  518 QDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMA  565 (625)
T ss_pred             ccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHH
Confidence            3345556667777788999999999999998765433 4444455433

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.73  E-value=1e-13  Score=121.78  Aligned_cols=345  Identities=14%  Similarity=0.136  Sum_probs=260.5

Q ss_pred             CCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHH
Q 012126           92 RHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRI  171 (470)
Q Consensus        92 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l  171 (470)
                      +.++++|..+|..+++--..+.|.+++++........+..+||.+|.+-.-...    .+++.+|....+.||..|+|.+
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHH
Confidence            457889999999999999999999999999888778999999999987654332    7889999999999999999999


Q ss_pred             HHHHHhcCCC---hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhH-HHHHHHHHHH----CCCCC----CHHHH
Q 012126          172 LELLVTHRNY---LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISI-AYTLFNKMFE----RGVMP----DVESY  239 (470)
Q Consensus       172 l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~----~~~~p----~~~~~  239 (470)
                      |....+-++.   ...|.+++.+|++.|+.|...+|..+|..+++.++..+ |..++.++..    +.++|    |..-|
T Consensus       280 L~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF  359 (625)
T KOG4422|consen  280 LSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFF  359 (625)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHH
Confidence            9988865542   34578899999999999999999999999999888754 4555555443    22222    45567


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhCC----CCCC---HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 012126          240 RILMQGLCRKSQVNRAVDLLEDMLNKG----FVPD---TLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTV  312 (470)
Q Consensus       240 ~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  312 (470)
                      ...+..|.+..+.+-|.++..-+....    +.|+   ..-|..+..+.|+....+.....++.|.-.-+-|+..+...+
T Consensus       360 ~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~  439 (625)
T KOG4422|consen  360 QSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHL  439 (625)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHH
Confidence            788889999999999999887665321    1222   345667788888899999999999999888888999999999


Q ss_pred             HHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcC-Ch--------H-----HHHHH-------HHHHHHCC
Q 012126          313 VLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQG-MF--------D-----VAKKY-------MQLMISKG  371 (470)
Q Consensus       313 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-~~--------~-----~a~~~-------~~~~~~~~  371 (470)
                      +++..-.|+++-.-++|.++...|..-+......++..+++.. +.        .     -|..+       -.++.+..
T Consensus       440 lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~  519 (625)
T KOG4422|consen  440 LRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQD  519 (625)
T ss_pred             HHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhcc
Confidence            9999999999999999999988775555544444444444433 11        0     01111       12233333


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC-CCCHHHHH---HHHHHHHcCCcHHHHHHHHHHHHHccc
Q 012126          372 FSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGE-APHEDTWV---MIVPQICAGEEMEKLGEVLNEIVKVEI  442 (470)
Q Consensus       372 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~p~~~~~~---~l~~~~~~~g~~~~a~~~~~~m~~~~~  442 (470)
                      +  .....+.+...+.+.|..++|.++|..+.+.+- .|.....+   -++..-...++...|..+++-|...+.
T Consensus       520 ~--~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~  592 (625)
T KOG4422|consen  520 W--PATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNL  592 (625)
T ss_pred             C--ChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCc
Confidence            3  445677788889999999999999999965532 23333344   566667788899999999999976554

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.71  E-value=1.3e-12  Score=133.75  Aligned_cols=365  Identities=11%  Similarity=0.027  Sum_probs=226.8

Q ss_pred             HHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC
Q 012126           66 QKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNL  145 (470)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  145 (470)
                      ..++..++++..+.++.+ .      .|.......-.......+...++...+..+.+.. +-+......+.-.....|+
T Consensus       320 ~~~~~~~~~~~~~~~~~~-~------~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~  391 (987)
T PRK09782        320 LPVLLKEGQYDAAQKLLA-T------LPANEMLEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQLMQNGQ  391 (987)
T ss_pred             HHHHHhccHHHHHHHHhc-C------CCcchHHHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccc
Confidence            566677777776665522 1      1222221111112223356666666666665552 3455666666666677777


Q ss_pred             chhHHHHHHHHHhC--CCccCHHHHHHHHHHHHhcCC------------------------ChhhHHHHHHHHHHC-CC-
Q 012126          146 PDRALKTFRSMLEF--NCKPLPKQLNRILELLVTHRN------------------------YLRPAFDLFKSAHKH-GV-  197 (470)
Q Consensus       146 ~~~A~~~~~~~~~~--~~~p~~~~~~~ll~~~~~~~~------------------------~~~~a~~~~~~~~~~-~~-  197 (470)
                      .++|.++|+.....  +..++......+...+.....                        ...++...++..... +. 
T Consensus       392 ~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~  471 (987)
T PRK09782        392 SREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDM  471 (987)
T ss_pred             HHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccC
Confidence            77887777776652  112223333344444433211                        111111122222211 11 


Q ss_pred             CC--CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHH
Q 012126          198 LP--NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYT  275 (470)
Q Consensus       198 ~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  275 (470)
                      ++  +...|..+..++.. ++.++|...+.+.....  |+......+...+...|++++|+..|+++...  .|+...+.
T Consensus       472 p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~  546 (987)
T PRK09782        472 SPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLL  546 (987)
T ss_pred             CCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHH
Confidence            23  56677777777766 77888888777776653  45444434445556788888888888887554  23334455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcC
Q 012126          276 TLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQG  355 (470)
Q Consensus       276 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  355 (470)
                      .+..++.+.|+.++|...+++..+.. +.+...+..+.....+.|++++|...+++..+.  .|+...+..+..++.+.|
T Consensus       547 ~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG  623 (987)
T PRK09782        547 AAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRH  623 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCC
Confidence            66677788888888888888887763 222233333333444568888888888888774  466777888888888888


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHH
Q 012126          356 MFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLN  435 (470)
Q Consensus       356 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  435 (470)
                      +.++|+..+++..+.. +.+...++.+..++...|+.++|...+++.++... -+...+..+..++...|++++|...++
T Consensus       624 ~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P-~~~~a~~nLA~al~~lGd~~eA~~~l~  701 (987)
T PRK09782        624 NVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP-DDPALIRQLAYVNQRLDDMAATQHYAR  701 (987)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            8888888888888763 34566777777788888888888888888877542 356677888888888888888888888


Q ss_pred             HHHHccccCCceeee
Q 012126          436 EIVKVEIKGDTRIVE  450 (470)
Q Consensus       436 ~m~~~~~~p~~~~~~  450 (470)
                      +.++.  .|+..-..
T Consensus       702 ~Al~l--~P~~a~i~  714 (987)
T PRK09782        702 LVIDD--IDNQALIT  714 (987)
T ss_pred             HHHhc--CCCCchhh
Confidence            88843  45544433

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.70  E-value=2.7e-13  Score=127.46  Aligned_cols=285  Identities=11%  Similarity=0.014  Sum_probs=220.6

Q ss_pred             cCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHH--HHHHHHHhcCChhHH
Q 012126          143 SNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYN--IMMRAFCFNGDISIA  220 (470)
Q Consensus       143 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~li~~~~~~g~~~~a  220 (470)
                      .|+++.|.+.+....+..  +.+..+..+........|+.+.+...+.++.+..  |+.....  .....+...|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~--~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHHHH
Confidence            699999998888765532  2233333333444468888999999999998754  4443322  346788899999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCH-------hhHHHHHHHHHhcCCHHHHHHH
Q 012126          221 YTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDT-------LSYTTLLNSLCRKKKLREAYKL  293 (470)
Q Consensus       221 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~  293 (470)
                      ...++++.+.++. +...+..+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++
T Consensus       173 l~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        173 RHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            9999999988755 6788889999999999999999999999988765322       2333444444455666777777


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC
Q 012126          294 LCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFS  373 (470)
Q Consensus       294 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  373 (470)
                      ++.+.+. .+.++.....+...+...|+.++|.+++++..+.  .|+....  ++.+....++.+++.+..+...+.. +
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~-P  325 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-G  325 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-C
Confidence            7777543 2457778888999999999999999999998874  4555322  3344456699999999999998863 5


Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          374 PHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       374 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      -|...+..+...|.+.|++++|.+.|+...+.  .|+...+..+..++.+.|+.++|.+++++.+..
T Consensus       326 ~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        326 DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            56677889999999999999999999999984  599999999999999999999999999988753

>TIGR00540 hemY_coli hemY protein

Probab=99.68  E-value=3.3e-13  Score=127.58  Aligned_cols=292  Identities=11%  Similarity=-0.008  Sum_probs=213.5

Q ss_pred             HHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHH
Q 012126          141 AESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIA  220 (470)
Q Consensus       141 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  220 (470)
                      ...|+++.|.+.+.+..+.  .|+...+..+........|+.+.+.+.+.+..+....++....-.....+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            3579999999999887764  46655555566666667788999999999987654332333444457888899999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHH-HHHHHH---HhcCCHHHHHHHHHH
Q 012126          221 YTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYT-TLLNSL---CRKKKLREAYKLLCR  296 (470)
Q Consensus       221 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~ll~~~---~~~~~~~~a~~~~~~  296 (470)
                      ...++.+.+..+. +..++..+...+...|++++|.+++..+.+.+.. +...+. .-..++   ...+..+++.+.+..
T Consensus       173 l~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~  250 (409)
T TIGR00540       173 RHGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLN  250 (409)
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            9999999988654 6678889999999999999999999999988765 333332 111222   222333333345555


Q ss_pred             HHHcC---CCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHH---HHHHHHHHHhcCChHHHHHHHHHHHHC
Q 012126          297 MKVKG---CNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVS---YRTLVGGLCDQGMFDVAKKYMQLMISK  370 (470)
Q Consensus       297 m~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~---~~~li~~~~~~g~~~~a~~~~~~~~~~  370 (470)
                      +.+..   .+.+...+..+...+...|+.++|.+++++..+..  ||...   ...........++.+.+.+.++...+.
T Consensus       251 ~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~  328 (409)
T TIGR00540       251 WWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN  328 (409)
T ss_pred             HHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh
Confidence            44431   11377888889999999999999999999998853  44432   111222234457888899999888875


Q ss_pred             CCCCCH--HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          371 GFSPHF--SVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       371 ~~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      . +-|.  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++.+.
T Consensus       329 ~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       329 V-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             C-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2 3344  667789999999999999999999544433568999999999999999999999999998754

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.

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

Probab=99.68  E-value=2.4e-12  Score=123.45  Aligned_cols=364  Identities=13%  Similarity=0.119  Sum_probs=277.5

Q ss_pred             HhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchh
Q 012126           69 IASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDR  148 (470)
Q Consensus        69 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  148 (470)
                      +-..|+.++|..++..+.++.  +.....|..|...+-..|+.+++...+-...... |.+...|..+.....+.|++++
T Consensus       149 lfarg~~eeA~~i~~EvIkqd--p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~q  225 (895)
T KOG2076|consen  149 LFARGDLEEAEEILMEVIKQD--PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQ  225 (895)
T ss_pred             HHHhCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHH
Confidence            345699999999999999887  4678899999999999999999998776665554 6788999999999999999999


Q ss_pred             HHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHH----HHHHHHHHhcCChhHHHHHH
Q 012126          149 ALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSY----NIMMRAFCFNGDISIAYTLF  224 (470)
Q Consensus       149 A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~li~~~~~~g~~~~a~~~~  224 (470)
                      |.-.|.+.++.  .|+..-+..==..++...|+...|.+.|.++.......|..-+    -.+++.+...++.+.|.+.+
T Consensus       226 A~~cy~rAI~~--~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~l  303 (895)
T KOG2076|consen  226 ARYCYSRAIQA--NPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKAL  303 (895)
T ss_pred             HHHHHHHHHhc--CCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            99999999985  4655444444445666778899999999999987653333333    33456677788889999998


Q ss_pred             HHHHHC-CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC---------------------------CCHhhHHH
Q 012126          225 NKMFER-GVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV---------------------------PDTLSYTT  276 (470)
Q Consensus       225 ~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---------------------------~~~~~~~~  276 (470)
                      +..... +-..+...+++++..+.+...++.+......+......                           ++..++ -
T Consensus       304 e~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~-r  382 (895)
T KOG2076|consen  304 EGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI-R  382 (895)
T ss_pred             HHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH-h
Confidence            887762 33446778889999999999999999988887762111                           222221 1


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhc
Q 012126          277 LLNSLCRKKKLREAYKLLCRMKVKG--CNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQ  354 (470)
Q Consensus       277 ll~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  354 (470)
                      +.-++......+....+.....+..  ..-++..|.-+..+|.+.|++.+|+.+|..+.....--+...|..+..+|...
T Consensus       383 l~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l  462 (895)
T KOG2076|consen  383 LMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMEL  462 (895)
T ss_pred             HhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHH
Confidence            2223344444444444555555554  33345678889999999999999999999999876556788999999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHHcCCc
Q 012126          355 GMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELL--------KAGEAPHEDTWVMIVPQICAGEE  426 (470)
Q Consensus       355 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~--------~~~~~p~~~~~~~l~~~~~~~g~  426 (470)
                      |..++|.+.|+..+... +-+...--.|...+-+.|+.++|.+.+..+.        ..+..|+..........+.+.|+
T Consensus       463 ~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk  541 (895)
T KOG2076|consen  463 GEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGK  541 (895)
T ss_pred             hhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhh
Confidence            99999999999999852 3334455667788899999999999999854        23455666666777778899999


Q ss_pred             HHHHHHHHHHHHH
Q 012126          427 MEKLGEVLNEIVK  439 (470)
Q Consensus       427 ~~~a~~~~~~m~~  439 (470)
                      .++-+.+...|+.
T Consensus       542 ~E~fi~t~~~Lv~  554 (895)
T KOG2076|consen  542 REEFINTASTLVD  554 (895)
T ss_pred             HHHHHHHHHHHHH
Confidence            9998888777765

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.67  E-value=4.3e-12  Score=129.92  Aligned_cols=360  Identities=11%  Similarity=-0.031  Sum_probs=260.0

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhC-C-CCCCHHHHHHHHHHHHHcCCc---
Q 012126           72 QSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSE-H-YPVTPSLFTYLIKIYAESNLP---  146 (470)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~li~~~~~~g~~---  146 (470)
                      .+...++.+..+.+.+..  +-+......+.-...+.|+.++|.+++...... + ...+......|+..|.+.+.+   
T Consensus       355 ~~~~~~~~~~~~~~y~~~--~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~  432 (987)
T PRK09782        355 TRNKAEALRLARLLYQQE--PANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATP  432 (987)
T ss_pred             cCchhHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccch
Confidence            456666666666665552  235666666667788899999999999988763 1 233556666888888888763   


Q ss_pred             hhHHHH----------------------HHHHHh-CCCccC--HHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCH
Q 012126          147 DRALKT----------------------FRSMLE-FNCKPL--PKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNT  201 (470)
Q Consensus       147 ~~A~~~----------------------~~~~~~-~~~~p~--~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  201 (470)
                      .+++.+                      .+.... .+..|+  .......+..+... +..++|...+.+.....  |+.
T Consensus       433 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~  509 (987)
T PRK09782        433 AKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDA  509 (987)
T ss_pred             HHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--Cch
Confidence            333222                      111111 112233  33333333334333 56888999888877654  565


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSL  281 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  281 (470)
                      .....+...+...|++++|...|+++...  .|+...+..+..++.+.|+.++|...++...+.+.. +...+..+....
T Consensus       510 ~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~~l  586 (987)
T PRK09782        510 WQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHAQR  586 (987)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHH
Confidence            44444555667899999999999998655  344455667788889999999999999999887533 333333444445


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 012126          282 CRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAK  361 (470)
Q Consensus       282 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  361 (470)
                      .+.|++++|...+++..+.  .|+...|..+..++.+.|++++|+..+++..+.. +.+...+..+..++...|++++|+
T Consensus       587 ~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi  663 (987)
T PRK09782        587 YIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSR  663 (987)
T ss_pred             HhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            5669999999999999987  5678889999999999999999999999998863 235667788888999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          362 KYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHE-DTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      ..+++..+.. +-+...+..+..++...|++++|+..|++.++..  |+. .+.........+..+++.+.+-++.... 
T Consensus       664 ~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~--P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~-  739 (987)
T PRK09782        664 EMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI--DNQALITPLTPEQNQQRFNFRRLHEEVGRRWT-  739 (987)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCchhhhhhhHHHHHHHHHHHHHHHHHHHhh-
Confidence            9999999863 4467788999999999999999999999998854  444 4555666667777888888888887764 


Q ss_pred             cccCCce
Q 012126          441 EIKGDTR  447 (470)
Q Consensus       441 ~~~p~~~  447 (470)
                       +.|+..
T Consensus       740 -~~~~~~  745 (987)
T PRK09782        740 -FSFDSS  745 (987)
T ss_pred             -cCccch
Confidence             445544

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

Probab=99.67  E-value=8.8e-13  Score=111.98  Aligned_cols=294  Identities=15%  Similarity=0.123  Sum_probs=227.3

Q ss_pred             cCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCChhH
Q 012126          143 SNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPN---TKSYNIMMRAFCFNGDISI  219 (470)
Q Consensus       143 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~  219 (470)
                      ..++++|.+.|-+|.+  ..|.....+.-|..+++++|..+.|+.+.+.+.+..--+.   ......|.+-|...|-+|.
T Consensus        48 s~Q~dKAvdlF~e~l~--~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          48 SNQPDKAVDLFLEMLQ--EDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hcCcchHHHHHHHHHh--cCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            5788999999999988  4577777788889999999999999999999887521111   2344567788999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCH----hhHHHHHHHHHhcCCHHHHHHHHH
Q 012126          220 AYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDT----LSYTTLLNSLCRKKKLREAYKLLC  295 (470)
Q Consensus       220 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~  295 (470)
                      |+++|..+.+.+.- -......|+..|-...+|++|+++-+++.+.+..+..    ..|.-|...+....+.+.|..++.
T Consensus       126 AE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~  204 (389)
T COG2956         126 AEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLK  204 (389)
T ss_pred             HHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            99999999886532 5567788999999999999999999999888765442    356666777777889999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 012126          296 RMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH  375 (470)
Q Consensus       296 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  375 (470)
                      +..+.+ +..+..--.+.+.+...|+++.|.+.++...+.+..--..+...|..+|.+.|+.++....+..+.+..  ++
T Consensus       205 kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g  281 (389)
T COG2956         205 KALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--TG  281 (389)
T ss_pred             HHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CC
Confidence            988763 223333344567889999999999999999998765556788889999999999999999999998863  33


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH---cCCcHHHHHHHHHHHHHccccC
Q 012126          376 FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQIC---AGEEMEKLGEVLNEIVKVEIKG  444 (470)
Q Consensus       376 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~---~~g~~~~a~~~~~~m~~~~~~p  444 (470)
                      ...-..+...-....-.+.|...+.+-+..  +|+...+..++..-.   ..|...+-..+++.|....++.
T Consensus       282 ~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~  351 (389)
T COG2956         282 ADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRR  351 (389)
T ss_pred             ccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHHhh
Confidence            334445555444555677777777766664  499999999998654   3456778888888887654443

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

Probab=99.65  E-value=1.3e-15  Score=136.94  Aligned_cols=261  Identities=16%  Similarity=0.142  Sum_probs=87.5

Q ss_pred             HHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 012126          135 YLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFN  214 (470)
Q Consensus       135 ~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  214 (470)
                      .+...+...|++++|++++++.......|+...|..++..++...++.+.|...++++...+.. +...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            4566677777777777777554443224555556666666666666677777777777665433 45556666665 577


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC-CCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 012126          215 GDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKG-FVPDTLSYTTLLNSLCRKKKLREAYKL  293 (470)
Q Consensus       215 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~  293 (470)
                      +++++|.+++....+..  ++...+..++..+...++++++.++++.+.... ...+...|..+...+.+.|+.++|.+.
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            77777777776655443  345556666777777777777777777765432 234566666677777777777777777


Q ss_pred             HHHHHHcCCCC-CHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 012126          294 LCRMKVKGCNP-DIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF  372 (470)
Q Consensus       294 ~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  372 (470)
                      +++..+.  .| |....+.++..+...|+.+++.++++...+.. +.|...+..+..++...|+.++|..++++..+.. 
T Consensus       169 ~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-  244 (280)
T PF13429_consen  169 YRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-  244 (280)
T ss_dssp             HHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-
T ss_pred             HHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-
Confidence            7777665  33 35566667777777777777666666665542 3344556666777777777777777777766642 


Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 012126          373 SPHFSVSHALIKGFCNVGKVDEACGVLEELL  403 (470)
Q Consensus       373 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  403 (470)
                      +.|..+...+.+++...|+.++|.++.++..
T Consensus       245 p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  245 PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             TT-HHHHHHHHHHHT----------------
T ss_pred             ccccccccccccccccccccccccccccccc
Confidence            3466666677777777777777777766553

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.64  E-value=2.2e-12  Score=121.28  Aligned_cols=284  Identities=12%  Similarity=0.039  Sum_probs=217.8

Q ss_pred             cCCchHHHHHHHHHhhCCCCCCHHHHHHH-HHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHH-HHHHhcCCChhhH
Q 012126          108 AKYFSLIDDILITLKSEHYPVTPSLFTYL-IKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRIL-ELLVTHRNYLRPA  185 (470)
Q Consensus       108 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll-~~~~~~~~~~~~a  185 (470)
                      .|+++.|.+.+....+..  .++..+..+ ..+....|+++.|.+.+.++.+  ..|+......+. ..+....|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~--~~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAE--LADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCcchHHHHHHHHHHHHHCCCHHHH
Confidence            599999998888765542  234444433 4455789999999999999987  346654433222 4455577889999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHHcCChHHHHHH
Q 012126          186 FDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDV-------ESYRILMQGLCRKSQVNRAVDL  258 (470)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~~~~~~~~~~~a~~~  258 (470)
                      ...++++.+..+. +......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++
T Consensus       173 l~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        173 RHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            9999999987744 7888899999999999999999999999988765332       1333344444455566777777


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCC
Q 012126          259 LEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCL  338 (470)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  338 (470)
                      ++.+.+. .+.+......+...+...|+.++|.+++++..+.  .++...  .++.+.+..++.+++++..+...+.. +
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~-P  325 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH-G  325 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhC-C
Confidence            7776543 2347778888999999999999999999999885  445422  23444456699999999999988763 3


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          339 PNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       339 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      -|...+..+...|.+.+++++|.+.|+.+.+.  .|+...+..+...+.+.|+.++|.+++++...
T Consensus       326 ~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        326 DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            35667888899999999999999999999985  68989999999999999999999999998754

>TIGR00540 hemY_coli hemY protein

Probab=99.62  E-value=3.2e-12  Score=120.92  Aligned_cols=290  Identities=11%  Similarity=0.033  Sum_probs=209.9

Q ss_pred             HccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHH-HHHHHHHHHhcCCChhh
Q 012126          106 GRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQ-LNRILELLVTHRNYLRP  184 (470)
Q Consensus       106 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~-~~~ll~~~~~~~~~~~~  184 (470)
                      ...|+++.|.+.+....+.. +.....+-....++...|+++.|.+.+.+..+..  |+... .......+.-..|+++.
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~-~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHA-AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHH
Confidence            45699999999998877664 2233334455677888899999999999987643  54432 23322333346677999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHH-HHHHHH---HHcCChHHHHHHHH
Q 012126          185 AFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYR-ILMQGL---CRKSQVNRAVDLLE  260 (470)
Q Consensus       185 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~-~ll~~~---~~~~~~~~a~~~~~  260 (470)
                      |...++.+.+..+. +...+..+...+...|++++|.+++..+.+.++. +...+. .-..++   ...+..+++.+.+.
T Consensus       172 Al~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~  249 (409)
T TIGR00540       172 ARHGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLL  249 (409)
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHH
Confidence            99999999988743 7778889999999999999999999999998755 333332 111222   33333343444555


Q ss_pred             HHHhCCCC---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHH---HHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          261 DMLNKGFV---PDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVH---YNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       261 ~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~---~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      .+.+....   .+...+..+...+...|+.++|.+++++..+.  .|+...   ...........++.+.+.+.++...+
T Consensus       250 ~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk  327 (409)
T TIGR00540       250 NWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAK  327 (409)
T ss_pred             HHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHH
Confidence            55544321   37788888999999999999999999999987  344432   11222223445778888888888776


Q ss_pred             CCCCCC-H--HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          335 NGCLPN-L--VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       335 ~~~~p~-~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      .  .|+ .  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.++|++...
T Consensus       328 ~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       328 N--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             h--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5  344 3  556688899999999999999999644444578988899999999999999999999998643

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.

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

Probab=99.61  E-value=1.2e-11  Score=118.62  Aligned_cols=331  Identities=16%  Similarity=0.138  Sum_probs=252.7

Q ss_pred             HHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCC
Q 012126          102 ILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNY  181 (470)
Q Consensus       102 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~  181 (470)
                      ...+...|++++|.+++.++++.. |.....|.+|...|-..|+.++++..+-..-.  ..|....+-..+.-+....|.
T Consensus       146 AN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAH--L~p~d~e~W~~ladls~~~~~  222 (895)
T KOG2076|consen  146 ANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAH--LNPKDYELWKRLADLSEQLGN  222 (895)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHh--cCCCChHHHHHHHHHHHhccc
Confidence            334455599999999999999886 77889999999999999999999887765544  445555555566666667888


Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHH----HHHHHHHcCChHHHHH
Q 012126          182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRI----LMQGLCRKSQVNRAVD  257 (470)
Q Consensus       182 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~----ll~~~~~~~~~~~a~~  257 (470)
                      ++.|.-.|.+.++..+. +...+-.=+..|-+.|+...|.+.|.++.....+.|..-+..    +++.+...++-+.|.+
T Consensus       223 i~qA~~cy~rAI~~~p~-n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~  301 (895)
T KOG2076|consen  223 INQARYCYSRAIQANPS-NWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAK  301 (895)
T ss_pred             HHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            99999999999987643 555555667888999999999999999998765434433333    4556777788899999


Q ss_pred             HHHHHHhC-CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---------------------------CCCHHHH
Q 012126          258 LLEDMLNK-GFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGC---------------------------NPDIVHY  309 (470)
Q Consensus       258 ~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~---------------------------~~~~~~~  309 (470)
                      .++..... +-..+...++.++..|.+...++.|......+.....                           .++..+.
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            98887763 2234666788999999999999999988887766211                           1222221


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHhchhCCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          310 NTVVLGFCREGRAIDACKVLEDMPSNGC--LPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFC  387 (470)
Q Consensus       310 ~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  387 (470)
                       .++-++...+..+....+.....+.++  .-+...|.-+..++.+.|++.+|+.++..+......-+..+|-.+..+|.
T Consensus       382 -rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~  460 (895)
T KOG2076|consen  382 -RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYM  460 (895)
T ss_pred             -hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHH
Confidence             122334444555555555555555553  33567888999999999999999999999998765667889999999999


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Q 012126          388 NVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  438 (470)
                      ..|..++|.+.|+..+... +-+...-..|...+.+.|+.++|.+.++.+.
T Consensus       461 ~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  461 ELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            9999999999999998853 2244566677788899999999999999986

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

Probab=99.60  E-value=2.2e-11  Score=106.80  Aligned_cols=292  Identities=15%  Similarity=0.055  Sum_probs=228.7

Q ss_pred             cCCchhHHHHHHHHHhCCCccCHHHHHHHHH-HHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHH
Q 012126          143 SNLPDRALKTFRSMLEFNCKPLPKQLNRILE-LLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAY  221 (470)
Q Consensus       143 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  221 (470)
                      .|++.+|++...+-.+.+-.|   ..+.++. ..+...|+.+.+-.++.+..+....++....-+..+.....|+++.|.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p---~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~  173 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP---VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAR  173 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch---HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHH
Confidence            688999998888877655333   2333332 344567788889999988887644556777778888899999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCH-------hhHHHHHHHHHhcCCHHHHHHHH
Q 012126          222 TLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDT-------LSYTTLLNSLCRKKKLREAYKLL  294 (470)
Q Consensus       222 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~  294 (470)
                      .-.+++.+.+.. +.........+|.+.|++.....++..+.+.|.-.++       .+|..+++-....+..+.-...+
T Consensus       174 ~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W  252 (400)
T COG3071         174 ENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWW  252 (400)
T ss_pred             HHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHH
Confidence            999999888765 6678889999999999999999999999998876443       45677777666666667766677


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 012126          295 CRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSP  374 (470)
Q Consensus       295 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  374 (470)
                      +....+ .+-++..-.+++.-+.+.|+.++|.++..+..+.+..|+    -...-.+.+.++.+.-++..++-.+. .+-
T Consensus       253 ~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~-h~~  326 (400)
T COG3071         253 KNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQ-HPE  326 (400)
T ss_pred             HhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHh-CCC
Confidence            776544 234566667788889999999999999999988876666    22233567788888888888777664 234


Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCc
Q 012126          375 HFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDT  446 (470)
Q Consensus       375 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  446 (470)
                      ++..+.+|...|.+.+.+.+|...|+..++.  .|+..+|..+..++.+.|+.++|.++.++.+-.-..|+.
T Consensus       327 ~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~~  396 (400)
T COG3071         327 DPLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPNL  396 (400)
T ss_pred             ChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCCC
Confidence            5578899999999999999999999988874  599999999999999999999999999998865555543

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

Probab=99.60  E-value=3.3e-11  Score=107.40  Aligned_cols=292  Identities=13%  Similarity=0.072  Sum_probs=186.0

Q ss_pred             HHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCC--CCHHHHHHHHHHHHhc
Q 012126          137 IKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVL--PNTKSYNIMMRAFCFN  214 (470)
Q Consensus       137 i~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~  214 (470)
                      ..++-...+.+++++-...+...|. |....+.+...++..+..++++|+.+|+++.+.++-  -|..+|..++-.--..
T Consensus       234 ~~a~~el~q~~e~~~k~e~l~~~gf-~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~  312 (559)
T KOG1155|consen  234 KKAYQELHQHEEALQKKERLSSVGF-PNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccC-CccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhh
Confidence            3444445566666666666666553 444445555555555666688888888888776421  1556666554332221


Q ss_pred             CChh-HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 012126          215 GDIS-IAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKL  293 (470)
Q Consensus       215 g~~~-~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  293 (470)
                      ..+. .|..+++ .  .  +-...|..++.+-|.-.++.++|...|+..++.+.. ...+|+.+..-|....+...|.+-
T Consensus       313 skLs~LA~~v~~-i--d--KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~s  386 (559)
T KOG1155|consen  313 SKLSYLAQNVSN-I--D--KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIES  386 (559)
T ss_pred             HHHHHHHHHHHH-h--c--cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHH
Confidence            1111 1111111 1  1  123456666777777777888888888888777654 566777777778888888888888


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC
Q 012126          294 LCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFS  373 (470)
Q Consensus       294 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  373 (470)
                      ++...+-+ +.|-..|-.|.++|.-.+...-|+-.|++..+.. +-|...|.+|.++|.+.++.++|++.|......| .
T Consensus       387 YRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-d  463 (559)
T KOG1155|consen  387 YRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-D  463 (559)
T ss_pred             HHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-c
Confidence            88877763 4466777778888888888888888888777642 2356778888888888888888888888877765 3


Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Q 012126          374 PHFSVSHALIKGFCNVGKVDEACGVLEELLKA----GEAPH--EDTWVMIVPQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       374 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~  438 (470)
                      .+...+..|...|-+.++.++|...|++.++.    |...+  .....-|..-+.+.+++++|..+.....
T Consensus       464 te~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  464 TEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVL  534 (559)
T ss_pred             cchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHh
Confidence            35567777888888888888888777776542    32222  1122224455566777777776655554

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

Probab=99.59  E-value=1.3e-11  Score=119.27  Aligned_cols=387  Identities=15%  Similarity=0.072  Sum_probs=239.1

Q ss_pred             CChHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012126           60 GSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKI  139 (470)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  139 (470)
                      .+..-+++.+-..||++.|...|-...+..+ ......+..+...+.+.|+++.+...|+.+.... |.+..+...|...
T Consensus       308 es~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~-d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~L  385 (1018)
T KOG2002|consen  308 ESFYQLGRSYHAQGDFEKAFKYYMESLKADN-DNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCL  385 (1018)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHccCC-CCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhH
Confidence            3455666777777888888777777665432 1123345556677777778877777777776664 5566666677777


Q ss_pred             HHHcC----CchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHH----HCCCCCCHHHHHHHHHHH
Q 012126          140 YAESN----LPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAH----KHGVLPNTKSYNIMMRAF  211 (470)
Q Consensus       140 ~~~~g----~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~li~~~  211 (470)
                      |+..+    ..+.|..++.+..+.. ..|...|-.+-. +....+ ...++..|....    ..+-.+.....|.+...+
T Consensus       386 ya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laq-l~e~~d-~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslh  462 (1018)
T KOG2002|consen  386 YAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQ-LLEQTD-PWASLDAYGNALDILESKGKQIPPEVLNNVASLH  462 (1018)
T ss_pred             HHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHH-HHHhcC-hHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHH
Confidence            76664    3455666666555432 223333333322 222222 333355554433    334345666777777777


Q ss_pred             HhcCChhHHHHHHHHHHHC---CCCCCHH------HHHHHHHHHHHcCChHH----------------------------
Q 012126          212 CFNGDISIAYTLFNKMFER---GVMPDVE------SYRILMQGLCRKSQVNR----------------------------  254 (470)
Q Consensus       212 ~~~g~~~~a~~~~~~m~~~---~~~p~~~------~~~~ll~~~~~~~~~~~----------------------------  254 (470)
                      ...|++.+|...|......   ...+|..      +--.+...+-..++++.                            
T Consensus       463 f~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~  542 (1018)
T KOG2002|consen  463 FRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARD  542 (1018)
T ss_pred             HHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHh
Confidence            7777777777777666543   1122221      11122333333344444                            


Q ss_pred             ------HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHh---------
Q 012126          255 ------AVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKG-CNPDIVHYNTVVLGFCR---------  318 (470)
Q Consensus       255 ------a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~---------  318 (470)
                            |...+.+....+- .++..++.+.+.+.+...+..|.+-|..+.+.- ..+|..+.-+|.+.|.+         
T Consensus       543 k~~~~ea~~~lk~~l~~d~-~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~  621 (1018)
T KOG2002|consen  543 KNNLYEASLLLKDALNIDS-SNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNP  621 (1018)
T ss_pred             ccCcHHHHHHHHHHHhccc-CCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccCh
Confidence                  4444444443321 244445555556666666666666555554431 12455555555554432         


Q ss_pred             ---cCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHH
Q 012126          319 ---EGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEA  395 (470)
Q Consensus       319 ---~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  395 (470)
                         .+..++|+++|.+..... +-|...-+-+.-.++..|++.+|..+|....+... -...+|-.+..+|+.+|++..|
T Consensus       622 ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~A  699 (1018)
T KOG2002|consen  622 EKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLA  699 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHH
Confidence               345678999998888753 33566667777788899999999999999988643 3445788899999999999999


Q ss_pred             HHHHHHHHHC-CCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCceeeecccchh
Q 012126          396 CGVLEELLKA-GEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLE  456 (470)
Q Consensus       396 ~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~  456 (470)
                      +++|+...+. .-.-+..+...|.+++.+.|++.+|.+.+...+..  .|...++..-+.+.
T Consensus       700 IqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~--~p~~~~v~FN~a~v  759 (1018)
T KOG2002|consen  700 IQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHL--APSNTSVKFNLALV  759 (1018)
T ss_pred             HHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CCccchHHhHHHHH
Confidence            9999987654 44457788999999999999999999999888854  45544443333333

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

Probab=99.59  E-value=7.3e-13  Score=123.05  Aligned_cols=201  Identities=15%  Similarity=0.046  Sum_probs=95.0

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHH---
Q 012126          235 DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNT---  311 (470)
Q Consensus       235 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~---  311 (470)
                      ...+|.++.++|.-.++.+.|++.|++..+.+.. ...+|+.+..-+.....+|.|...|+..+..    |+..||+   
T Consensus       420 sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~----~~rhYnAwYG  494 (638)
T KOG1126|consen  420 SPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGV----DPRHYNAWYG  494 (638)
T ss_pred             CcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcC----CchhhHHHHh
Confidence            3455555555555555555555555555444222 4445555544455555555555555554432    3333332   


Q ss_pred             HHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC
Q 012126          312 VVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGK  391 (470)
Q Consensus       312 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  391 (470)
                      +...|.+.++++.|+-.|++..+-+ +-+.+....+...+.+.|+.|+|+++++++...+. .|+..--.-+..+...++
T Consensus       495 lG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~-kn~l~~~~~~~il~~~~~  572 (638)
T KOG1126|consen  495 LGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP-KNPLCKYHRASILFSLGR  572 (638)
T ss_pred             hhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC-CCchhHHHHHHHHHhhcc
Confidence            3334555555555555555555432 11333444444445555555555555555554321 122222222333444555


Q ss_pred             HHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHcCCcHHHHHHHHHHHHHccccC
Q 012126          392 VDEACGVLEELLKAGEAPHE-DTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKG  444 (470)
Q Consensus       392 ~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p  444 (470)
                      +++|+..++++.+.  .|+. ..+..+...|.+.|+.+.|+.-|.-|.+.+.++
T Consensus       573 ~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  573 YVEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKG  624 (638)
T ss_pred             hHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCcc
Confidence            55555555555542  2332 244444455555555555555555555444333

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

Probab=99.59  E-value=7e-12  Score=121.16  Aligned_cols=380  Identities=11%  Similarity=0.059  Sum_probs=266.3

Q ss_pred             CChHHHHHHHhcCCChHHHHHHHHHhhcCCCC-CCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 012126           60 GSPCRVQKLIASQSDPLLAKEIFDYASRQPNF-RHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIK  138 (470)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  138 (470)
                      .-..++...+-.-+|+..+..+...+...... ..-...|-.+.+++-..|++++|...|-......-......+--|..
T Consensus       271 ~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQ  350 (1018)
T KOG2002|consen  271 VALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQ  350 (1018)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhH
Confidence            33456777888899999999999988754311 12345688999999999999999999988877652211334455899


Q ss_pred             HHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCC----ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 012126          139 IYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRN----YLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFN  214 (470)
Q Consensus       139 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  214 (470)
                      .|.+.|+.+.+...|+....  ..|+......++..++...+    ..+.|..++.+..+..+ .|...|-.+...+-..
T Consensus       351 m~i~~~dle~s~~~fEkv~k--~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~-~d~~a~l~laql~e~~  427 (1018)
T KOG2002|consen  351 MYIKRGDLEESKFCFEKVLK--QLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTP-VDSEAWLELAQLLEQT  427 (1018)
T ss_pred             HHHHhchHHHHHHHHHHHHH--hCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhccc-ccHHHHHHHHHHHHhc
Confidence            99999999999999999988  45888777788887776553    35778888888877653 3788888887777544


Q ss_pred             CChhHHHHHHHHHH----HCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC---CCCCCH------hhHHHHHHHH
Q 012126          215 GDISIAYTLFNKMF----ERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK---GFVPDT------LSYTTLLNSL  281 (470)
Q Consensus       215 g~~~~a~~~~~~m~----~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~~ll~~~  281 (470)
                       +...++.+|....    ..+-.+..+..|.+...+...|++++|...|......   ...++.      .+--.+...+
T Consensus       428 -d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~  506 (1018)
T KOG2002|consen  428 -DPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLL  506 (1018)
T ss_pred             -ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHH
Confidence             4444477776543    4555678899999999999999999999999988755   122232      1222344555


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHhHHHHHHHhchh--------------------------
Q 012126          282 CRKKKLREAYKLLCRMKVKGCNPD-IVHYNTVVLGFCREGRAIDACKVLEDMPS--------------------------  334 (470)
Q Consensus       282 ~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~--------------------------  334 (470)
                      -..++.+.|.+.|..+.+.  .|. +..|-.+.......+...+|...++....                          
T Consensus       507 E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~  584 (1018)
T KOG2002|consen  507 EELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAK  584 (1018)
T ss_pred             HhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccc
Confidence            5566777777777777654  222 22233332222233444444444443322                          


Q ss_pred             --------C-CCCCCHHHHHHHHHHHHh------------cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 012126          335 --------N-GCLPNLVSYRTLVGGLCD------------QGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVD  393 (470)
Q Consensus       335 --------~-~~~p~~~~~~~li~~~~~------------~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  393 (470)
                              . ...+|..+...|...|.+            .+..++|+++|.++++.. +-|...-|.+...++..|+++
T Consensus       585 k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~  663 (1018)
T KOG2002|consen  585 KKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFS  663 (1018)
T ss_pred             cHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCch
Confidence                    1 111344444444443332            345688999999988864 557777788888999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCce
Q 012126          394 EACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTR  447 (470)
Q Consensus       394 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  447 (470)
                      +|..+|.+..+... -...+|..+.++|...|++..|+++|+...+.-.+-+..
T Consensus       664 ~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~  716 (1018)
T KOG2002|consen  664 EARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRS  716 (1018)
T ss_pred             HHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCH
Confidence            99999999988643 366789999999999999999999999998765544433

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

Probab=99.58  E-value=1.5e-14  Score=129.98  Aligned_cols=259  Identities=15%  Similarity=0.120  Sum_probs=86.7

Q ss_pred             HHHHHccCCchHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCC
Q 012126          102 ILKLGRAKYFSLIDDILITLKSEH-YPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRN  180 (470)
Q Consensus       102 l~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~  180 (470)
                      ...+.+.|++++|.++++...... .+.++..|..+...+...++++.|++.++++...+.. +...+..++.. . ..+
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~-~~~   91 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-L-QDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-c-ccc
Confidence            445555566666666664332222 1334444444555555566666666666666553321 22233333333 2 344


Q ss_pred             ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHcCChHHHHHHH
Q 012126          181 YLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERG-VMPDVESYRILMQGLCRKSQVNRAVDLL  259 (470)
Q Consensus       181 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~  259 (470)
                      +.++|.++++...+..  ++...+..++..+...++++++.++++.+.... ...+...|..+...+.+.|+.++|++.+
T Consensus        92 ~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             cccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4566666655544332  345556666666777777777777777665432 2345566666667777777777777777


Q ss_pred             HHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCC
Q 012126          260 EDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLP  339 (470)
Q Consensus       260 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  339 (470)
                      ++..+..+. |......++..+...|+.+++.++++...+.. +.|...+..+..+|...|+.++|+..|++..+.+ +.
T Consensus       170 ~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~  246 (280)
T PF13429_consen  170 RKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PD  246 (280)
T ss_dssp             HHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT
T ss_pred             HHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cc
Confidence            777766433 45666667777777777777777766665542 3344556667777777777777777777766642 23


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 012126          340 NLVSYRTLVGGLCDQGMFDVAKKYMQLMI  368 (470)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~  368 (470)
                      |......+..++...|+.++|..+..++.
T Consensus       247 d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  247 DPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             -HHHHHHHHHHHT----------------
T ss_pred             ccccccccccccccccccccccccccccc
Confidence            56666666777777777777777766554

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

Probab=99.57  E-value=4.4e-12  Score=112.49  Aligned_cols=200  Identities=11%  Similarity=0.069  Sum_probs=143.2

Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHH
Q 012126          249 KSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKV  328 (470)
Q Consensus       249 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  328 (470)
                      +|++++|.+.|++.+.....-....||.= -.+-..|++++|++.|-.+... +..+..+...+...|-...+...|+++
T Consensus       503 ngd~dka~~~ykeal~ndasc~ealfnig-lt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASCTEALFNIG-LTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHHHHHHHHhc-ccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            57788888888887765332222333322 2355678888888888766433 123566666777788888888888888


Q ss_pred             HHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC
Q 012126          329 LEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEA  408 (470)
Q Consensus       329 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  408 (470)
                      +.+.... ++.|...+..|...|-+.|+-..|.+.+-+--+. ++-+..+..-|..-|....-++++..+|++..-  +.
T Consensus       581 ~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iq  656 (840)
T KOG2003|consen  581 LMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQ  656 (840)
T ss_pred             HHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cC
Confidence            8776654 5557788888889999999988888877654443 566777888888888888889999999998754  67


Q ss_pred             CCHHHHHHHHHH-HHcCCcHHHHHHHHHHHHHccccCCceeeecccch
Q 012126          409 PHEDTWVMIVPQ-ICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGL  455 (470)
Q Consensus       409 p~~~~~~~l~~~-~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~  455 (470)
                      |+..-|..++.. +.+.|++.+|++++++..++ ...|..-+..++++
T Consensus       657 p~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri  703 (840)
T KOG2003|consen  657 PNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRI  703 (840)
T ss_pred             ccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHH
Confidence            999999888754 55789999999999998653 44454444444443

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

Probab=99.57  E-value=2.7e-11  Score=103.09  Aligned_cols=223  Identities=18%  Similarity=0.107  Sum_probs=100.8

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCC-CCCC--HHHHHHHHHHHHHcCCchh
Q 012126           72 QSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEH-YPVT--PSLFTYLIKIYAESNLPDR  148 (470)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~li~~~~~~g~~~~  148 (470)
                      ..+++.|.++|-.+.+.+  +.+.++...|.+.+.+.|..+.|+.++..+..+. .+..  ..+.-.|..-|...|-+|.
T Consensus        48 s~Q~dKAvdlF~e~l~~d--~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED--PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hcCcchHHHHHHHHHhcC--chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            344556666666666543  3344555566666666677777777766665552 1111  1223335555666666666


Q ss_pred             HHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCChhHHHHHH
Q 012126          149 ALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNT----KSYNIMMRAFCFNGDISIAYTLF  224 (470)
Q Consensus       149 A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~  224 (470)
                      |.++|..+.+.+. --......++..+ ....+|++|+++-+++.+.+..+..    ..|..|...+....+++.|..++
T Consensus       126 AE~~f~~L~de~e-fa~~AlqqLl~IY-Q~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         126 AEDIFNQLVDEGE-FAEGALQQLLNIY-QATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             HHHHHHHHhcchh-hhHHHHHHHHHHH-HHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            6666666654321 1112222222222 2223355555555444444332211    12223333333334444444444


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012126          225 NKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKV  299 (470)
Q Consensus       225 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  299 (470)
                      .+..+.+.+ .+..--.+.+.+...|+++.|.+.++...+.+..--..+...|..+|...|+.++....+..+.+
T Consensus       204 ~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         204 KKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME  277 (389)
T ss_pred             HHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            444443222 12222223334444444444444444444443333333344444444444444444444444443

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

Probab=99.55  E-value=6.9e-11  Score=106.04  Aligned_cols=361  Identities=11%  Similarity=0.013  Sum_probs=251.5

Q ss_pred             HhcCCChHHHHHHHHHhhcCCCCCCC-HHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCch
Q 012126           69 IASQSDPLLAKEIFDYASRQPNFRHS-NSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPD  147 (470)
Q Consensus        69 ~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  147 (470)
                      +-..+.+++|++.+.++....   |+ +.-|......|...|+|+++.+-.....+.. |.-..++..-..++-..|+++
T Consensus       125 ~f~~kkY~eAIkyY~~AI~l~---p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~-P~Y~KAl~RRA~A~E~lg~~~  200 (606)
T KOG0547|consen  125 FFRNKKYDEAIKYYTQAIELC---PDEPIFYSNRAACYESLGDWEKVIEDCTKALELN-PDYVKALLRRASAHEQLGKFD  200 (606)
T ss_pred             hhhcccHHHHHHHHHHHHhcC---CCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC-cHHHHHHHHHHHHHHhhccHH
Confidence            345789999999999998653   55 7778888888999999999998888777664 334455555566666667776


Q ss_pred             hHHH----------------------HHHH---------HHh--CCCccCHHHHHHHHHHHHhcC-------C-------
Q 012126          148 RALK----------------------TFRS---------MLE--FNCKPLPKQLNRILELLVTHR-------N-------  180 (470)
Q Consensus       148 ~A~~----------------------~~~~---------~~~--~~~~p~~~~~~~ll~~~~~~~-------~-------  180 (470)
                      +|+.                      +++.         +.+  ..+.|+.....+.+..+....       +       
T Consensus       201 eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~ksDa~l  280 (606)
T KOG0547|consen  201 EALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSDKSDAAL  280 (606)
T ss_pred             HHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCccchhhH
Confidence            6552                      1111         110  123455555555555442110       0       


Q ss_pred             -------------ChhhHHHHHHHHHHC---CCCCC---------HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 012126          181 -------------YLRPAFDLFKSAHKH---GVLPN---------TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPD  235 (470)
Q Consensus       181 -------------~~~~a~~~~~~~~~~---~~~~~---------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  235 (470)
                                   .+..+.+.+.+-...   ....+         ..+...-...+.-.|+...|..-|+..+.....++
T Consensus       281 ~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~~  360 (606)
T KOG0547|consen  281 AEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAFN  360 (606)
T ss_pred             HHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcCcccc
Confidence                         122222222221110   00111         12222223334567888999999999998765543


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012126          236 VESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLG  315 (470)
Q Consensus       236 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  315 (470)
                      . .|--+..+|....+.++..+.|.+..+.+.. |..+|..=..++.-.+++++|..-|++..... +-+...|-.+.-+
T Consensus       361 ~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~~~~iQl~~a  437 (606)
T KOG0547|consen  361 S-LYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PENAYAYIQLCCA  437 (606)
T ss_pred             h-HHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhhHHHHHHHHH
Confidence            3 3777788899999999999999999988765 66677777777777899999999999998763 2245666666667


Q ss_pred             HHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-----CCCC--HHHHHHHHHHHHc
Q 012126          316 FCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKG-----FSPH--FSVSHALIKGFCN  388 (470)
Q Consensus       316 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~~~~--~~~~~~li~~~~~  388 (470)
                      ..+.++++++...|++..+. ++-....|+...+.+...++++.|.+.|+..++..     +..+  +.+.-+++-.-.+
T Consensus       438 ~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~qwk  516 (606)
T KOG0547|consen  438 LYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQWK  516 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhchh
Confidence            77889999999999998876 55567899999999999999999999999998742     1112  2222333333333


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          389 VGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                       +++..|.+++.+..+.+.+ ....|..|...-.+.|+.++|+++|++...
T Consensus       517 -~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  517 -EDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             -hhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence             8999999999999886533 455889999999999999999999998754

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

Probab=99.53  E-value=5.3e-11  Score=106.08  Aligned_cols=309  Identities=12%  Similarity=0.038  Sum_probs=231.0

Q ss_pred             HHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCc--cCHHHHHHHHHHHHhcCCCh
Q 012126          105 LGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCK--PLPKQLNRILELLVTHRNYL  182 (470)
Q Consensus       105 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--p~~~~~~~ll~~~~~~~~~~  182 (470)
                      +....+.+++..-.+.+...|++.+...-+....+.-...++++|+.+|+++.....-  -|..+|..+|-.--   +  
T Consensus       237 ~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~---~--  311 (559)
T KOG1155|consen  237 YQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKN---D--  311 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHh---h--
Confidence            3344556677777777788888888777777777777889999999999999885311  14445554443321   1  


Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 012126          183 RPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDM  262 (470)
Q Consensus       183 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  262 (470)
                      ...+..+.+-...--+--+.|...+.+-|.-.++.++|...|++..+.+.. ....|+.+..-|....+...|++-|+..
T Consensus       312 ~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrA  390 (559)
T KOG1155|consen  312 KSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRA  390 (559)
T ss_pred             hHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHH
Confidence            222333332221111234567888889999999999999999999998755 6788999999999999999999999999


Q ss_pred             HhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHH
Q 012126          263 LNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLV  342 (470)
Q Consensus       263 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  342 (470)
                      ++-.+. |-..|-.|.++|.-.+...-|+-.|++..+.. +-|...|.+|..+|.+.++.++|++.|......| ..+..
T Consensus       391 vdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~  467 (559)
T KOG1155|consen  391 VDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGS  467 (559)
T ss_pred             HhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchH
Confidence            998765 89999999999999999999999999998863 4578999999999999999999999999998875 23568


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCCHH--HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 012126          343 SYRTLVGGLCDQGMFDVAKKYMQLMISK----GFSPHFS--VSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVM  416 (470)
Q Consensus       343 ~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~--~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  416 (470)
                      .+..|...|.+.++.++|.+.+++.++.    |...+..  .-.-|..-+.+.+++++|..........           
T Consensus       468 ~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~-----------  536 (559)
T KOG1155|consen  468 ALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG-----------  536 (559)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC-----------
Confidence            8999999999999999999999887762    3322211  1122445567778887776655444331           


Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          417 IVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       417 l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                             ....++|..+++++.+.
T Consensus       537 -------~~e~eeak~LlReir~~  553 (559)
T KOG1155|consen  537 -------ETECEEAKALLREIRKI  553 (559)
T ss_pred             -------CchHHHHHHHHHHHHHh
Confidence                   23346777777777653

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

Probab=99.52  E-value=2.6e-10  Score=100.16  Aligned_cols=294  Identities=15%  Similarity=0.096  Sum_probs=225.7

Q ss_pred             HHHHHHc--cCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhc
Q 012126          101 LILKLGR--AKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTH  178 (470)
Q Consensus       101 ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~  178 (470)
                      +.+++.+  .|+|.+|+++..+-.+.+ +.....|..-+++.-..|+.+.+-.++.+.-+..-.++....-+.-.... .
T Consensus        88 ~~egl~~l~eG~~~qAEkl~~rnae~~-e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll-~  165 (400)
T COG3071          88 LNEGLLKLFEGDFQQAEKLLRRNAEHG-EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLL-N  165 (400)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHhhhcC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHH-h
Confidence            3344443  599999999999987776 44455566677777888999999999999887432333333333344444 6


Q ss_pred             CCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHHcCC
Q 012126          179 RNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDV-------ESYRILMQGLCRKSQ  251 (470)
Q Consensus       179 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~~~~~~~~  251 (470)
                      .++++.|..-++++.+.+.. +........++|.+.|++.....++.++.+.|.--+.       .+|..+++-....+.
T Consensus       166 ~~d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~  244 (400)
T COG3071         166 RRDYPAARENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNG  244 (400)
T ss_pred             CCCchhHHHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhcccc
Confidence            67799999999999988754 7788999999999999999999999999998865443       456777776666666


Q ss_pred             hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHh
Q 012126          252 VNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLED  331 (470)
Q Consensus       252 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  331 (470)
                      .+.-...|+..... .+-++..-.+++.-+.++|+.++|.++..+..+++..|+..    ..-.+.+-++...-++..+.
T Consensus       245 ~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~----~~~~~l~~~d~~~l~k~~e~  319 (400)
T COG3071         245 SEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC----RLIPRLRPGDPEPLIKAAEK  319 (400)
T ss_pred             chHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH----HHHhhcCCCCchHHHHHHHH
Confidence            67766677776543 34466677788889999999999999999999987766622    22345567777777766666


Q ss_pred             chhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          332 MPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       332 m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      -.+. .+-+...+.+|...|.+.+.+.+|...|+...+.  .|+..+|+.+..++.+.|+..+|.++.++.+..
T Consensus       320 ~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~  390 (400)
T COG3071         320 WLKQ-HPEDPLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLL  390 (400)
T ss_pred             HHHh-CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            5443 2334578888999999999999999999988774  789999999999999999999999999987644

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

Probab=99.48  E-value=2.1e-11  Score=113.57  Aligned_cols=287  Identities=14%  Similarity=0.017  Sum_probs=201.0

Q ss_pred             CchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCC--CccCHHHHHHHHHHHHhcCCChhhHHH
Q 012126          110 YFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFN--CKPLPKQLNRILELLVTHRNYLRPAFD  187 (470)
Q Consensus       110 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~~p~~~~~~~ll~~~~~~~~~~~~a~~  187 (470)
                      +.++|...|..+..+ +..+..+...+..+|...+++++|.++|+.+.+..  ..-+...|.+.|-.+-.     +-++.
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~-----~v~Ls  407 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD-----EVALS  407 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh-----hHHHH
Confidence            456777778775444 34455666778888888888888888888887632  12245666666655531     22333


Q ss_pred             HHHH-HHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 012126          188 LFKS-AHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKG  266 (470)
Q Consensus       188 ~~~~-~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  266 (470)
                      .+.+ +.+.. +-.+.+|.++..+|.-.++.+.|++.|++.+..+.. ...+|+.+..-+.....+|.|...|+..+...
T Consensus       408 ~Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~  485 (638)
T KOG1126|consen  408 YLAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVD  485 (638)
T ss_pred             HHHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCC
Confidence            3332 22322 236788888888888888888888888888776433 67788888888888888888888888876553


Q ss_pred             CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHH
Q 012126          267 FVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRT  346 (470)
Q Consensus       267 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  346 (470)
                      .. +-.+|-.+...|.+.++++.|+-.|+...+.+ +-+.+....+...+-+.|+.++|++++++......+ |...-..
T Consensus       486 ~r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~  562 (638)
T KOG1126|consen  486 PR-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYH  562 (638)
T ss_pred             ch-hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHH
Confidence            32 33455556677888888888888888888764 335566667777788888888888888887775432 3334344


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEA  408 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  408 (470)
                      .+..+...++.++|+..++++++. ++-+..+|..+...|.+.|+.+.|+.-|--+.+.+.+
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCc
Confidence            566677788888888888888874 2334557777778888888888888888887775433

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

Probab=99.47  E-value=3.8e-09  Score=98.41  Aligned_cols=335  Identities=14%  Similarity=0.049  Sum_probs=183.0

Q ss_pred             HHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHH
Q 012126           96 STYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELL  175 (470)
Q Consensus        96 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~  175 (470)
                      .||..-...|.+.+.++-|..+|....+- +|.+..+|......--..|..++...+|.++...  .|....+-.+...-
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~--~pkae~lwlM~ake  593 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ--CPKAEILWLMYAKE  593 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCcchhHHHHHHHH
Confidence            35555555566666666666666555544 2445555555555545555555555555555542  23333333333333


Q ss_pred             HhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHH
Q 012126          176 VTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRA  255 (470)
Q Consensus       176 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  255 (470)
                      .-..|+...|..++.+..+.... +...|-.-++.-....+++.|..+|.+....  .|+...|.--+..---.++.++|
T Consensus       594 ~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA  670 (913)
T KOG0495|consen  594 KWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEA  670 (913)
T ss_pred             HHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHH
Confidence            33345555555555555554432 4455555555555555566665555554432  33444444444444444555555


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhC
Q 012126          256 VDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSN  335 (470)
Q Consensus       256 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  335 (470)
                      ++++++.++.-.. -...|-.+...+-+.++++.|.+.|..-.+. ++-....|-.+...--+.|..-.|..+++..+-.
T Consensus       671 ~rllEe~lk~fp~-f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlk  748 (913)
T KOG0495|consen  671 LRLLEEALKSFPD-FHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK  748 (913)
T ss_pred             HHHHHHHHHhCCc-hHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc
Confidence            5555555544111 2234444444555555555555555444333 1222333444444444444555555555554443


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----------------------------CCCCCHHHHHHHHHHH
Q 012126          336 GCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK-----------------------------GFSPHFSVSHALIKGF  386 (470)
Q Consensus       336 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----------------------------~~~~~~~~~~~li~~~  386 (470)
                      + +-+...|...|+.-.+.|+.+.|..++.+.++.                             ....|+.+.-.+...|
T Consensus       749 N-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lf  827 (913)
T KOG0495|consen  749 N-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLF  827 (913)
T ss_pred             C-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHH
Confidence            3 123444455555555555555554444433321                             1244666777778888


Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          387 CNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       387 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      ....++++|.+.|.+.++.+. .+..+|.-+...+.+.|.-+.-.++++.....
T Consensus       828 w~e~k~~kar~Wf~Ravk~d~-d~GD~wa~fykfel~hG~eed~kev~~~c~~~  880 (913)
T KOG0495|consen  828 WSEKKIEKAREWFERAVKKDP-DNGDAWAWFYKFELRHGTEEDQKEVLKKCETA  880 (913)
T ss_pred             HHHHHHHHHHHHHHHHHccCC-ccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            888899999999999988653 25578888888889999888888888888754

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

Probab=99.46  E-value=1.1e-08  Score=95.41  Aligned_cols=360  Identities=12%  Similarity=0.041  Sum_probs=189.4

Q ss_pred             HHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC
Q 012126           65 VQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESN  144 (470)
Q Consensus        65 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  144 (470)
                      +=+......+++.|.-++..+.+..  +.+.+.|    .++++..-++.|..+++...+. +|.++.+|.+-...=-..|
T Consensus       382 LWKaAVelE~~~darilL~rAvecc--p~s~dLw----lAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ng  454 (913)
T KOG0495|consen  382 LWKAAVELEEPEDARILLERAVECC--PQSMDLW----LALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANG  454 (913)
T ss_pred             HHHHHHhccChHHHHHHHHHHHHhc--cchHHHH----HHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcC
Confidence            3344455555556666666655432  2233333    2345555566666666666554 4566666666555555666


Q ss_pred             CchhHHHHHHHHH----hCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCC---------------------
Q 012126          145 LPDRALKTFRSML----EFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLP---------------------  199 (470)
Q Consensus       145 ~~~~A~~~~~~~~----~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------------  199 (470)
                      +.+...+++++-+    ..|+..+...|..=-..|-.. |..-.+..+....+..|++-                     
T Consensus       455 n~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~a-gsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~  533 (913)
T KOG0495|consen  455 NVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDA-GSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIE  533 (913)
T ss_pred             CHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhc-CChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHH
Confidence            6666665554422    244444444443333333222 22333333333333333321                     


Q ss_pred             ---------------CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 012126          200 ---------------NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLN  264 (470)
Q Consensus       200 ---------------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  264 (470)
                                     +...|......=-..|..++...+|++....-.+ ....|-.....+-..|+...|..++....+
T Consensus       534 carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pk-ae~lwlM~ake~w~agdv~~ar~il~~af~  612 (913)
T KOG0495|consen  534 CARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPK-AEILWLMYAKEKWKAGDVPAARVILDQAFE  612 (913)
T ss_pred             HHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHhcCCcHHHHHHHHHHHH
Confidence                           3333433333333344455555555555444222 334444444445555666666666665555


Q ss_pred             CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCC-HHH
Q 012126          265 KGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN-LVS  343 (470)
Q Consensus       265 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~  343 (470)
                      .... +...|-..+..-.....++.|..+|.+....  .|+...|.--+...--.+..++|.+++++..+.  -|+ ...
T Consensus       613 ~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl  687 (913)
T KOG0495|consen  613 ANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKL  687 (913)
T ss_pred             hCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHH
Confidence            5433 4555555555555566666666666655543  344455544444444455666666666655553  233 334


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 012126          344 YRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICA  423 (470)
Q Consensus       344 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  423 (470)
                      |..+.+.+.+.++.+.|...|..-.+. ++.....|-.+...--+.|.+-.|..+++...-++.+ +...|...|+.-.+
T Consensus       688 ~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR  765 (913)
T KOG0495|consen  688 WLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELR  765 (913)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHH
Confidence            555555566666666666655544332 2333445555555556666777777777776655433 66677777777777


Q ss_pred             CCcHHHHHHHHHHHHHc
Q 012126          424 GEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       424 ~g~~~~a~~~~~~m~~~  440 (470)
                      .|+.+.|..++.++++.
T Consensus       766 ~gn~~~a~~lmakALQe  782 (913)
T KOG0495|consen  766 AGNKEQAELLMAKALQE  782 (913)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            77777777777666653

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

Probab=99.44  E-value=5.8e-10  Score=99.31  Aligned_cols=348  Identities=13%  Similarity=0.069  Sum_probs=236.2

Q ss_pred             HhcCCChHHHHHHHHHhhcCCCCCCCHH----HHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC
Q 012126           69 IASQSDPLLAKEIFDYASRQPNFRHSNS----TYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESN  144 (470)
Q Consensus        69 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  144 (470)
                      +.+.+++..|+.+++.++.+-. ..+-.    ..+.+.-.+.+.|+++.|+..|+++.+..  |+-.+-..|+-++..-|
T Consensus       247 ~~kkr~fskaikfyrmaldqvp-sink~~rikil~nigvtfiq~gqy~dainsfdh~m~~~--pn~~a~~nl~i~~f~i~  323 (840)
T KOG2003|consen  247 HFKKREFSKAIKFYRMALDQVP-SINKDMRIKILNNIGVTFIQAGQYDDAINSFDHCMEEA--PNFIAALNLIICAFAIG  323 (840)
T ss_pred             eeehhhHHHHHHHHHHHHhhcc-ccchhhHHHHHhhcCeeEEecccchhhHhhHHHHHHhC--ccHHhhhhhhhhheecC
Confidence            3456678889999888765421 12222    34445556788999999999999988774  56555444555556678


Q ss_pred             CchhHHHHHHHHHhCCCc------------cCHHHHHHHHHH-----HH-------------------------------
Q 012126          145 LPDRALKTFRSMLEFNCK------------PLPKQLNRILEL-----LV-------------------------------  176 (470)
Q Consensus       145 ~~~~A~~~~~~~~~~~~~------------p~~~~~~~ll~~-----~~-------------------------------  176 (470)
                      +.++..+.|.+|+.....            |+....+..+..     +-                               
T Consensus       324 d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~d  403 (840)
T KOG2003|consen  324 DAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCD  403 (840)
T ss_pred             cHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccH
Confidence            888888889888753222            233222222111     00                               


Q ss_pred             --------------------------hcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH--------------------
Q 012126          177 --------------------------THRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRA--------------------  210 (470)
Q Consensus       177 --------------------------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~--------------------  210 (470)
                                                -..|+++.|.+++.-+.+.+-+.-...-+.|-..                    
T Consensus       404 wcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~al  483 (840)
T KOG2003|consen  404 WCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIAL  483 (840)
T ss_pred             HHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHh
Confidence                                      0224455666666555443221111111111000                    


Q ss_pred             ----------------HHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhH
Q 012126          211 ----------------FCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSY  274 (470)
Q Consensus       211 ----------------~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  274 (470)
                                      ....|++++|.+.|++.....-.-....||+ .-.+-..|++++|++.|-++... +.-+..+.
T Consensus       484 n~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~i-l~nn~evl  561 (840)
T KOG2003|consen  484 NIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAI-LLNNAEVL  561 (840)
T ss_pred             cccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHH-HHhhHHHH
Confidence                            0123667777777777766532222222332 23466789999999999887543 22367777


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhc
Q 012126          275 TTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQ  354 (470)
Q Consensus       275 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  354 (470)
                      ..+.+.|-...+...|++++.+.... ++.|+.....|...|-+.|+-..|++.+-+-.+. ++-+..+..-|..-|...
T Consensus       562 ~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidt  639 (840)
T KOG2003|consen  562 VQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDT  639 (840)
T ss_pred             HHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhh
Confidence            78889999999999999999887665 5667899999999999999999999887664443 455778888888888888


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCc
Q 012126          355 GMFDVAKKYMQLMISKGFSPHFSVSHALIKG-FCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEE  426 (470)
Q Consensus       355 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  426 (470)
                      .-+++++.+|++..-  +.|+..-|..++.. +.+.|++.+|.++|+..-++ ++-|......|++.+...|-
T Consensus       640 qf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  640 QFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            889999999998755  68999999888855 56789999999999998665 66688999999998877663

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

Probab=99.44  E-value=1.1e-08  Score=91.92  Aligned_cols=358  Identities=13%  Similarity=0.107  Sum_probs=215.8

Q ss_pred             cCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHH
Q 012126           71 SQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRAL  150 (470)
Q Consensus        71 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  150 (470)
                      ++++...|..+|+.++..+  ..+...|...+..-.+.+.+..|..+++..+..- |--...|-.-+.+=-..|++..|.
T Consensus        85 sq~e~~RARSv~ERALdvd--~r~itLWlkYae~Emknk~vNhARNv~dRAvt~l-PRVdqlWyKY~ymEE~LgNi~gaR  161 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVD--YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTIL-PRVDQLWYKYIYMEEMLGNIAGAR  161 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcc--cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhc-chHHHHHHHHHHHHHHhcccHHHH
Confidence            4677888999999987554  3456677778888888888999999998887663 444556666666666778888888


Q ss_pred             HHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 012126          151 KTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFER  230 (470)
Q Consensus       151 ~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  230 (470)
                      ++|++-.+  ..|+...|++.+..=.+.. .++.|..++++..--  .|++.+|-...+.=.+.|+...|..+|...++.
T Consensus       162 qiferW~~--w~P~eqaW~sfI~fElRyk-eieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~  236 (677)
T KOG1915|consen  162 QIFERWME--WEPDEQAWLSFIKFELRYK-EIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEF  236 (677)
T ss_pred             HHHHHHHc--CCCcHHHHHHHHHHHHHhh-HHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            88888776  5688888888887665433 377788888777643  367777766666666666666666666554432


Q ss_pred             -C------------------------------------------------------------------------------
Q 012126          231 -G------------------------------------------------------------------------------  231 (470)
Q Consensus       231 -~------------------------------------------------------------------------------  231 (470)
                       |                                                                              
T Consensus       237 ~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~  316 (677)
T KOG1915|consen  237 LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVS  316 (677)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHH
Confidence             0                                                                              


Q ss_pred             -CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCH--hhHHHHH----H-H---HHhcCCHHHHHHHHHHHHHc
Q 012126          232 -VMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDT--LSYTTLL----N-S---LCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       232 -~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~ll----~-~---~~~~~~~~~a~~~~~~m~~~  300 (470)
                       -+.|-.+|-..+..-...|+.+...++|+..+.. ++|-.  ..|..-|    + +   -....|.+.+.++++..++.
T Consensus       317 ~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l  395 (677)
T KOG1915|consen  317 KNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL  395 (677)
T ss_pred             hCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence             0112233333333333334444444444444332 11110  0111100    0 0   01234444444444444442


Q ss_pred             CCCCCHHHHHHHHHHH----HhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 012126          301 GCNPDIVHYNTVVLGF----CREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHF  376 (470)
Q Consensus       301 ~~~~~~~~~~~li~~~----~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  376 (470)
                       ++-...||.-+--.|    .++.+...|.+++....  |.-|-..+|...|..-.+.+++|.+.+++++.++-+ +-+.
T Consensus       396 -IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c  471 (677)
T KOG1915|consen  396 -IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENC  471 (677)
T ss_pred             -cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhh
Confidence             222333333333222    24455555555555443  345666677777777777777888888887777754 3456


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcc
Q 012126          377 SVSHALIKGFCNVGKVDEACGVLEELLKAG-EAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       377 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      .+|......-...|+.+.|..+|.-.+... .......|...|..-...|.++.|..+++.+++..
T Consensus       472 ~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt  537 (677)
T KOG1915|consen  472 YAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRT  537 (677)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhc
Confidence            677777766677788888888887776542 12233456666666667788888888888877653

>PRK12370 invasion protein regulator; Provisional

Probab=99.43  E-value=2.9e-10  Score=111.77  Aligned_cols=264  Identities=13%  Similarity=0.009  Sum_probs=180.2

Q ss_pred             HHHHHHHHHHHHh----cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH---------hcCChhHHHHHHHHHHHCC
Q 012126          165 PKQLNRILELLVT----HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFC---------FNGDISIAYTLFNKMFERG  231 (470)
Q Consensus       165 ~~~~~~ll~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~---------~~g~~~~a~~~~~~m~~~~  231 (470)
                      ...|...+.....    ..+.+++|...|++..+.... +...|..+..++.         ..+++++|...+++..+.+
T Consensus       256 ~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld  334 (553)
T PRK12370        256 IDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD  334 (553)
T ss_pred             hHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC
Confidence            3444444444321    233467899999999876533 4556666555443         2345789999999998876


Q ss_pred             CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HHHH
Q 012126          232 VMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDI-VHYN  310 (470)
Q Consensus       232 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~  310 (470)
                      .. +...+..+...+...|++++|+..|++..+.++. +...+..+..++...|++++|...+++..+.  .|+. ..+.
T Consensus       335 P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~  410 (553)
T PRK12370        335 HN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGI  410 (553)
T ss_pred             CC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHH
Confidence            54 7788888888888999999999999999887644 5667888888899999999999999999887  3442 2333


Q ss_pred             HHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHcc
Q 012126          311 TVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH-FSVSHALIKGFCNV  389 (470)
Q Consensus       311 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~  389 (470)
                      .++..+...|++++|...++++.+...+-+...+..+..++...|+.++|...+.++...  .|+ ....+.+...|...
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~  488 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQN  488 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhcc
Confidence            444456678899999999998876532223445666777888999999999999887654  333 34455566667777


Q ss_pred             CCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          390 GKVDEACGVLEELLKA-GEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       390 g~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      |  ++|...++.+.+. +..+....+  +-..|.-.|+-+.+... +++.+.
T Consensus       489 g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        489 S--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             H--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence            7  4788877776553 112222233  33334555665555555 777654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.43  E-value=2.3e-10  Score=99.92  Aligned_cols=198  Identities=16%  Similarity=0.087  Sum_probs=103.1

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 012126          238 SYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFC  317 (470)
Q Consensus       238 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  317 (470)
                      .+..+...+...|++++|.+.+++..+.... +...+..+...+...|++++|.+.+++..+.. +.+...+..+...+.
T Consensus        33 ~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~  110 (234)
T TIGR02521        33 IRVQLALGYLEQGDLEVAKENLDKALEHDPD-DYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLC  110 (234)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHH
Confidence            3334444444444444444444444433211 23344444444445555555555555444432 123334444445555


Q ss_pred             hcCCHhHHHHHHHhchhCCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHH
Q 012126          318 REGRAIDACKVLEDMPSNGCL-PNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEAC  396 (470)
Q Consensus       318 ~~~~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  396 (470)
                      ..|++++|...+++..+.... .....+..+...+...|++++|...+.+..+.. +.+...+..+...+...|++++|.
T Consensus       111 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  189 (234)
T TIGR02521       111 QQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDAR  189 (234)
T ss_pred             HcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHH
Confidence            555555555555555442111 123344445556666666666666666666542 223445566666666677777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          397 GVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       397 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      ..+++..+. ...+...+..++..+...|+.++|..+.+.+.+
T Consensus       190 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       190 AYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            777766654 233455555666666666777777766666543

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.41  E-value=3.8e-10  Score=98.55  Aligned_cols=201  Identities=16%  Similarity=0.081  Sum_probs=158.6

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLN  279 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  279 (470)
                      ....+..+...+...|++++|.+.+++..+.... +...+..+...+...|++++|.+.+++..+.... +...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPD-DYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHH
Confidence            4566777888888999999999999988776432 5677788888888999999999999988876544 5567777888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChH
Q 012126          280 SLCRKKKLREAYKLLCRMKVKGC-NPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFD  358 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  358 (470)
                      .+...|++++|...+++...... ......+..+...+...|++++|...+.+..+.. +.+...+..+...+...|+++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHH
Confidence            88889999999999998876422 2234566677888889999999999999887753 234567778888889999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          359 VAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       359 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      +|...+++..+. .+.+...+..+...+...|+.++|..+.+.+..
T Consensus       187 ~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       187 DARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            999999988876 344566777778888889999999988887755

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.

>PRK12370 invasion protein regulator; Provisional

Probab=99.39  E-value=2.6e-10  Score=112.18  Aligned_cols=267  Identities=13%  Similarity=0.082  Sum_probs=190.5

Q ss_pred             CCHHHHHHHHHHHH-----ccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHc---------CCchhHHHHHHHHHh
Q 012126           93 HSNSTYLILILKLG-----RAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAES---------NLPDRALKTFRSMLE  158 (470)
Q Consensus        93 ~~~~~~~~ll~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---------g~~~~A~~~~~~~~~  158 (470)
                      .+...|...+.+..     ..+++++|...+++..+.. |.+...|..+..+|...         +++++|...+++..+
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            45565555555432     1256899999999998876 55677777777665432         347899999999988


Q ss_pred             CCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHH
Q 012126          159 FNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVES  238 (470)
Q Consensus       159 ~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  238 (470)
                      .  .|+.......+..+....|++++|...|++..+.++. +...+..+...+...|++++|...+++..+.++. +...
T Consensus       333 l--dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~  408 (553)
T PRK12370        333 L--DHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAA  408 (553)
T ss_pred             c--CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-Chhh
Confidence            4  5766666666666666778899999999999987643 6778888999999999999999999999988654 3333


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHH
Q 012126          239 YRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPD-IVHYNTVVLGFC  317 (470)
Q Consensus       239 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~  317 (470)
                      +..++..+...|++++|+..++++......-+...+..+..++...|+.++|...+.++...  .|+ ....+.+...|+
T Consensus       409 ~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~  486 (553)
T PRK12370        409 GITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYC  486 (553)
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHh
Confidence            44455567778999999999999887643324556777888899999999999999998665  333 344555666677


Q ss_pred             hcCCHhHHHHHHHhchhCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 012126          318 REGRAIDACKVLEDMPSNG-CLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKG  371 (470)
Q Consensus       318 ~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  371 (470)
                      ..|  ++|...++.+.+.. ..+....+  +-..+.-.|+.+.+..+ +++.+.+
T Consensus       487 ~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        487 QNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             ccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            777  47777777765531 12222223  33344556776766665 7777654

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

Probab=99.37  E-value=2.8e-10  Score=97.11  Aligned_cols=231  Identities=13%  Similarity=0.055  Sum_probs=190.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 012126          204 YNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR  283 (470)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  283 (470)
                      -+-+.++|.+.|.+.+|.+-|+.-.+.  .|-..||..|-+.|.+..++..|+.++.+-++.- +-|+....-+.+.+-.
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHH
Confidence            367889999999999999999988776  4567788889999999999999999999887752 2244444566778888


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 012126          284 KKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKY  363 (470)
Q Consensus       284 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  363 (470)
                      .++.++|.++++...+.. +.++.....+...|.-.++++-|+..|+.+.+.|+. +...|+.+.-+|.-.+++|-++.-
T Consensus       303 m~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHH
Confidence            999999999999988763 446666777777888899999999999999999875 677888888888889999999999


Q ss_pred             HHHHHHCCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          364 MQLMISKGFSPH--FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       364 ~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      |++....--.|+  ..+|..+....+..|++..|.+.|+-.+..+.. +...++.|.-.-.+.|++++|..+++.....
T Consensus       381 f~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  381 FQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            998887533343  457777888888899999999999998876543 6778999888888999999999999998754

>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=99.35  E-value=3.9e-09  Score=100.54  Aligned_cols=294  Identities=13%  Similarity=0.096  Sum_probs=209.2

Q ss_pred             HHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHc--
Q 012126           66 QKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAES--  143 (470)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--  143 (470)
                      ..++...|+++.|++.++.....  +......+......+.+.|++++|..++..++..+ |.+..-|..+..+..-.  
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcc
Confidence            36778899999999999876433  23445667777889999999999999999999987 55555556666665332  


Q ss_pred             ---CCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHH
Q 012126          144 ---NLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIA  220 (470)
Q Consensus       144 ---g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  220 (470)
                         .+.+...++|+++...-  |.......+.-.+......-..+...+..+...|++   .+|+.|-..|......+-.
T Consensus        88 ~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i  162 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAII  162 (517)
T ss_pred             cccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHH
Confidence               24677788888887643  443333333222221111224566667777788865   4677777777766666666


Q ss_pred             HHHHHHHHHC----C----------CCCCHH--HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 012126          221 YTLFNKMFER----G----------VMPDVE--SYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRK  284 (470)
Q Consensus       221 ~~~~~~m~~~----~----------~~p~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  284 (470)
                      .+++......    +          -.|+..  ++..+...|...|++++|+++.++.++..+. .+..|..-...+-..
T Consensus       163 ~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~KarilKh~  241 (517)
T PF12569_consen  163 ESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARILKHA  241 (517)
T ss_pred             HHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHC
Confidence            6666665432    1          123442  4456678888999999999999999988543 467888888999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHH------HH--HHHHHHHHhcCC
Q 012126          285 KKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLV------SY--RTLVGGLCDQGM  356 (470)
Q Consensus       285 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~------~~--~~li~~~~~~g~  356 (470)
                      |++++|.+.++...... .-|...-+-.+..+.++|++++|.+++......+..|...      .|  .....+|.+.|+
T Consensus       242 G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~  320 (517)
T PF12569_consen  242 GDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGD  320 (517)
T ss_pred             CCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999999998774 2366677777888999999999999999988776544221      22  344578889999


Q ss_pred             hHHHHHHHHHHHH
Q 012126          357 FDVAKKYMQLMIS  369 (470)
Q Consensus       357 ~~~a~~~~~~~~~  369 (470)
                      +..|++.|..+.+
T Consensus       321 ~~~ALk~~~~v~k  333 (517)
T PF12569_consen  321 YGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998877765

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PF13041 PPR_2: PPR repeat family

Probab=99.35  E-value=2.5e-12  Score=81.40  Aligned_cols=49  Identities=39%  Similarity=0.903  Sum_probs=24.7

Q ss_pred             CCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHH
Q 012126          304 PDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLC  352 (470)
Q Consensus       304 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  352 (470)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.+|++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            3444555555555555555555555555555555555555555555443

>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=99.34  E-value=8.4e-09  Score=98.32  Aligned_cols=306  Identities=12%  Similarity=0.082  Sum_probs=144.6

Q ss_pred             HHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhc---
Q 012126          102 ILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTH---  178 (470)
Q Consensus       102 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~---  178 (470)
                      ...+...|++++|.+.+..-... +.............+.+.|+.++|..+|..+++.+  |+...|...+..+...   
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcc
Confidence            34456677777777777654433 33344555666777777777777777777777754  6666665555554411   


Q ss_pred             --CCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh-hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHH
Q 012126          179 --RNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDI-SIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRA  255 (470)
Q Consensus       179 --~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  255 (470)
                        ....+....+|+++...-  |.......+.-.+....++ ..+..++..+..+|++   .+|+.+-..|......+-.
T Consensus        88 ~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i  162 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAII  162 (517)
T ss_pred             cccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHH
Confidence              112444455555554432  2222222221111111122 1223334444444443   2333333333333333333


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCCHhHHHHHHHhch
Q 012126          256 VDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDI--VHYNTVVLGFCREGRAIDACKVLEDMP  333 (470)
Q Consensus       256 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~  333 (470)
                      .+++.......-.               .+.+....      ....-+|+.  +++..+.+.|-..|++++|++++++..
T Consensus       163 ~~l~~~~~~~l~~---------------~~~~~~~~------~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI  221 (517)
T PF12569_consen  163 ESLVEEYVNSLES---------------NGSFSNGD------DEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAI  221 (517)
T ss_pred             HHHHHHHHHhhcc---------------cCCCCCcc------ccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3333332211000               00000000      000012222  233444555666666666666666665


Q ss_pred             hCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHH
Q 012126          334 SNGCLPN-LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHED  412 (470)
Q Consensus       334 ~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  412 (470)
                      +.  .|+ +..|..-...+-+.|++.+|...++...+.+ .-|..+-+-.+..+.++|++++|.+++..+.+.+..|...
T Consensus       222 ~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~  298 (517)
T PF12569_consen  222 EH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSN  298 (517)
T ss_pred             hc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccC
Confidence            54  243 4455555556666666666666666666543 2344444455555566666666666666665544322211


Q ss_pred             ------HH--HHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          413 ------TW--VMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       413 ------~~--~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                            .|  .-...+|.+.|++..|++.|..+.+
T Consensus       299 L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  299 LNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence                  22  2234456666666666655555543

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PF13041 PPR_2: PPR repeat family

Probab=99.34  E-value=3.3e-12  Score=80.87  Aligned_cols=49  Identities=39%  Similarity=0.863  Sum_probs=32.6

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          199 PNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLC  247 (470)
Q Consensus       199 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  247 (470)
                      ||..+||++|++|++.|++++|.++|++|.+.|+.||..||+.++++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            5666666666666666666666666666666666666666666666665

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

Probab=99.33  E-value=9.6e-08  Score=86.02  Aligned_cols=354  Identities=15%  Similarity=0.117  Sum_probs=254.3

Q ss_pred             cCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHH
Q 012126           71 SQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRAL  150 (470)
Q Consensus        71 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  150 (470)
                      ..||...|.++|+.-..   ..|+...|.+.|..-.+-+.++.|..+++...-.+  |+...|..-...=-++|++..|.
T Consensus       153 ~LgNi~gaRqiferW~~---w~P~eqaW~sfI~fElRykeieraR~IYerfV~~H--P~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWME---WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVH--PKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             HhcccHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheec--ccHHHHHHHHHHHHhcCcHHHHH
Confidence            36888889998885432   36888999999999999999999999999987654  78888888888888889999999


Q ss_pred             HHHHHHHhCCCccCHHHHHHHHHHHHh---cCCChhh----------------HHHHH----------------------
Q 012126          151 KTFRSMLEFNCKPLPKQLNRILELLVT---HRNYLRP----------------AFDLF----------------------  189 (470)
Q Consensus       151 ~~~~~~~~~~~~p~~~~~~~ll~~~~~---~~~~~~~----------------a~~~~----------------------  189 (470)
                      .+|+..++.  ..|...-..++.+++.   ....++.                +..+|                      
T Consensus       228 ~VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~  305 (677)
T KOG1915|consen  228 SVYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVG  305 (677)
T ss_pred             HHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhh
Confidence            988887652  1112111122222111   1111111                12222                      


Q ss_pred             ------HHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-------HHHHHHHHHH---HHcCChH
Q 012126          190 ------KSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDV-------ESYRILMQGL---CRKSQVN  253 (470)
Q Consensus       190 ------~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~~~---~~~~~~~  253 (470)
                            +.+.+.+ +-|-.+|--.++.-...|+.+...++|++.+.. ++|-.       ..|..+=.++   ....|.+
T Consensus       306 KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~e  383 (677)
T KOG1915|consen  306 KRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVE  383 (677)
T ss_pred             hhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence                  2222222 236777888888888889999999999999875 44421       1222222222   3468899


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHH----hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHH
Q 012126          254 RAVDLLEDMLNKGFVPDTLSYTTLLNSLC----RKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVL  329 (470)
Q Consensus       254 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~----~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  329 (470)
                      .+.++|+.+++. ++-..+||.-+=-+|+    ++.++..|.+++...+..  -|-..+|...|..-.+.+.++.+..++
T Consensus       384 rtr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~--cPK~KlFk~YIelElqL~efDRcRkLY  460 (677)
T KOG1915|consen  384 RTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGK--CPKDKLFKGYIELELQLREFDRCRKLY  460 (677)
T ss_pred             HHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhcc--CCchhHHHHHHHHHHHHhhHHHHHHHH
Confidence            999999999884 3335566665544444    678999999999988754  788899999999999999999999999


Q ss_pred             HhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC
Q 012126          330 EDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKG-FSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEA  408 (470)
Q Consensus       330 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  408 (470)
                      ++..+.+ +-|..+|......-...|+.+.|..+|+-.++.. +......|-+.|+--...|.++.|..+++.+++..  
T Consensus       461 Ekfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt--  537 (677)
T KOG1915|consen  461 EKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRT--  537 (677)
T ss_pred             HHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhc--
Confidence            9999975 3367888888887888999999999999998753 33445678888888889999999999999998854  


Q ss_pred             CCHHHHHHHHHHHH-----cCC-----------cHHHHHHHHHHHHH
Q 012126          409 PHEDTWVMIVPQIC-----AGE-----------EMEKLGEVLNEIVK  439 (470)
Q Consensus       409 p~~~~~~~l~~~~~-----~~g-----------~~~~a~~~~~~m~~  439 (470)
                      +...+|.+....-.     +.|           ....|..+|+.+..
T Consensus       538 ~h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~  584 (677)
T KOG1915|consen  538 QHVKVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANT  584 (677)
T ss_pred             ccchHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHH
Confidence            45667777765433     334           55678888877754

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

Probab=99.31  E-value=2.3e-10  Score=109.76  Aligned_cols=91  Identities=14%  Similarity=0.129  Sum_probs=67.2

Q ss_pred             HHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHC
Q 012126          116 DILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKH  195 (470)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~  195 (470)
                      .++..+...|+.|+..+|..+|..|+..|+.+.|- +|.-|...........++.++.... ..++.+.+.         
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~-~And~Enpk---------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHK-EANDAENPK---------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhccc-ccccccCCC---------
Confidence            45666777888888888999999999889888887 8888877666666666776666543 334344333         


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhH
Q 012126          196 GVLPNTKSYNIMMRAFCFNGDISI  219 (470)
Q Consensus       196 ~~~~~~~~~~~li~~~~~~g~~~~  219 (470)
                        .|...+|..|..+|...||+..
T Consensus        80 --ep~aDtyt~Ll~ayr~hGDli~  101 (1088)
T KOG4318|consen   80 --EPLADTYTNLLKAYRIHGDLIL  101 (1088)
T ss_pred             --CCchhHHHHHHHHHHhccchHH
Confidence              4778888888888888888765

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.29  E-value=1.5e-09  Score=102.10  Aligned_cols=238  Identities=18%  Similarity=0.162  Sum_probs=176.9

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHC-----CC-CCCHHH-HHHHHHHHHHcCChHHHHHHHHHHHhC-----CCC
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFER-----GV-MPDVES-YRILMQGLCRKSQVNRAVDLLEDMLNK-----GFV  268 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~~-~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~  268 (470)
                      ..+...+...|...|+++.|..+++...+.     |. .|...+ .+.+...|...+++++|..+|+++...     |-.
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            456666899999999999999999887654     21 223333 334667888999999999999998753     322


Q ss_pred             -C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CC-CCCH-HHHHHHHHHHHhcCCHhHHHHHHHhchhC---C
Q 012126          269 -P-DTLSYTTLLNSLCRKKKLREAYKLLCRMKVK-----GC-NPDI-VHYNTVVLGFCREGRAIDACKVLEDMPSN---G  336 (470)
Q Consensus       269 -~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~-~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~  336 (470)
                       | -..+++.|..+|.+.|++++|...+++..+.     |. .|.+ ..++.+...++..+++++|..+++...+.   -
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence             2 2356777888999999999998888776432     11 1222 23666777889999999999998875442   1


Q ss_pred             CCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CC--CC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHH-
Q 012126          337 CLP----NLVSYRTLVGGLCDQGMFDVAKKYMQLMISK----GF--SP-HFSVSHALIKGFCNVGKVDEACGVLEELLK-  404 (470)
Q Consensus       337 ~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-  404 (470)
                      ..+    -..+++.|...|...|++++|.+++++++..    +.  .+ ....++.+...|.+.+.+++|.++|.+... 
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            122    2468999999999999999999999998763    11  11 245678888999999999999999987642 


Q ss_pred             ---CCCC-CC-HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Q 012126          405 ---AGEA-PH-EDTWVMIVPQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       405 ---~~~~-p~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~  438 (470)
                         .|.. |+ ..+|..|...|...|+++.|.++.+...
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence               2321 23 3588999999999999999999998876

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

Probab=99.29  E-value=1.7e-08  Score=92.79  Aligned_cols=211  Identities=13%  Similarity=0.022  Sum_probs=89.7

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC--CCCCCHhhHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK--GFVPDTLSYTTL  277 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l  277 (470)
                      ...+|-++.--|...|+..+|.+.|.+....+.. =...|-.+...|+-.|..++|+..|...-+.  |.. -+..|  +
T Consensus       311 ~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~h-lP~LY--l  386 (611)
T KOG1173|consen  311 KALSWFAVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCH-LPSLY--L  386 (611)
T ss_pred             CCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCc-chHHH--H
Confidence            3444444444444445555555555443332211 1233444444444455555555544443321  110 01111  1


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhC----C-CC-CCHHHHHHHHHHH
Q 012126          278 LNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSN----G-CL-PNLVSYRTLVGGL  351 (470)
Q Consensus       278 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~-~~-p~~~~~~~li~~~  351 (470)
                      .--|.+.++.+.|.+.|.+.... .+-|+...+-+.-.....+.+.+|..+|+.....    + -. -...+++.|..+|
T Consensus       387 gmey~~t~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~  465 (611)
T KOG1173|consen  387 GMEYMRTNNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAY  465 (611)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHH
Confidence            22234444555555555544433 1223444444444444444555555555443311    0 00 1223344444455


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012126          352 CDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIV  418 (470)
Q Consensus       352 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  418 (470)
                      .+.+.+++|+..+++.+... +.+..++.++.-.|...|+++.|.+.|.+.+.  +.|+..+-..++
T Consensus       466 Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL  529 (611)
T KOG1173|consen  466 RKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELL  529 (611)
T ss_pred             HHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHH
Confidence            55555555555555544431 33444455555455555555555555554443  334444443333

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

Probab=99.28  E-value=2.8e-09  Score=91.16  Aligned_cols=233  Identities=12%  Similarity=0.053  Sum_probs=192.0

Q ss_pred             HHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHH-HHHHH
Q 012126          166 KQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESY-RILMQ  244 (470)
Q Consensus       166 ~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~-~~ll~  244 (470)
                      .-|..-+..|+-..|.+.+|.+.|+..++.-  |-+.||..|-+.|.+..+...|+.+|.+-.+.  .|-.+|| ..+.+
T Consensus       223 wwWk~Q~gkCylrLgm~r~AekqlqssL~q~--~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~AR  298 (478)
T KOG1129|consen  223 WWWKQQMGKCYLRLGMPRRAEKQLQSSLTQF--PHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQAR  298 (478)
T ss_pred             HHHHHHHHHHHHHhcChhhhHHHHHHHhhcC--CchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHH
Confidence            3466677788878888999999999888753  67789999999999999999999999998876  3444554 55778


Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhH
Q 012126          245 GLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAID  324 (470)
Q Consensus       245 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  324 (470)
                      .+...++.++|.++|+...+.... ++.....+...|.-.++.+.|...++++...|+. +...|+.+.-+|.-.+++|-
T Consensus       299 i~eam~~~~~a~~lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~  376 (478)
T KOG1129|consen  299 IHEAMEQQEDALQLYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDL  376 (478)
T ss_pred             HHHHHHhHHHHHHHHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhh
Confidence            888899999999999999887543 6666666777777889999999999999999865 78889999999999999999


Q ss_pred             HHHHHHhchhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 012126          325 ACKVLEDMPSNGCLPN--LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEEL  402 (470)
Q Consensus       325 a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  402 (470)
                      ++.-|......--.|+  ...|..+-......|++..|.+.|+-.+..+ ..+...+|.|.-.-.+.|++++|..++...
T Consensus       377 ~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A  455 (478)
T KOG1129|consen  377 VLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAA  455 (478)
T ss_pred             hHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHh
Confidence            9999888766533343  3467777777888999999999999988764 345678888888888999999999999988


Q ss_pred             HHC
Q 012126          403 LKA  405 (470)
Q Consensus       403 ~~~  405 (470)
                      ...
T Consensus       456 ~s~  458 (478)
T KOG1129|consen  456 KSV  458 (478)
T ss_pred             hhh
Confidence            764

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

Probab=99.27  E-value=3.6e-10  Score=108.40  Aligned_cols=254  Identities=13%  Similarity=0.105  Sum_probs=155.1

Q ss_pred             HHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 012126          151 KTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFER  230 (470)
Q Consensus       151 ~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  230 (470)
                      .++-.+...|+.|+..+|..++..|+ ..|+.+.|- +|.-|.-.....+...|+.++.+....++.+.+.         
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc-~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYC-TKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHc-ccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------
Confidence            34556667788888888888888777 555577666 7777776666667777888888777777777665         


Q ss_pred             CCCCCHHHHHHHHHHHHHcCChHH---HHHHHHHHH----hCCCCCCHhhHHH--------------HHHHHHhcCCHHH
Q 012126          231 GVMPDVESYRILMQGLCRKSQVNR---AVDLLEDML----NKGFVPDTLSYTT--------------LLNSLCRKKKLRE  289 (470)
Q Consensus       231 ~~~p~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~----~~~~~~~~~~~~~--------------ll~~~~~~~~~~~  289 (470)
                        .|...||..|..+|...||...   +.+.++...    ..|+.....-+-.              .+....-.|-++.
T Consensus        80 --ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaq  157 (1088)
T KOG4318|consen   80 --EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQ  157 (1088)
T ss_pred             --CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHH
Confidence              5677888888888888888544   333222221    1222211111111              1111222233334


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 012126          290 AYKLLCRMKVKGCNPDIVHYNTVVLGFCREG-RAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMI  368 (470)
Q Consensus       290 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  368 (470)
                      +.+++..+......-.   +..+++-+.... .+++-..+.+...+   .|+..+|..++.+-...|+.+.|..++.+|.
T Consensus       158 llkll~~~Pvsa~~~p---~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emk  231 (1088)
T KOG4318|consen  158 LLKLLAKVPVSAWNAP---FQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMK  231 (1088)
T ss_pred             HHHHHhhCCcccccch---HHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence            4443333322111100   001122222222 23333333333333   4788888888888888888888888888888


Q ss_pred             HCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCc
Q 012126          369 SKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEE  426 (470)
Q Consensus       369 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  426 (470)
                      +.|++.+...|..|+-+   .++..-+..+++.|.+.|+.|+..|+...+..+.+.|.
T Consensus       232 e~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  232 EKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            88888887777777755   67777778888888888888888888877777777554

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

Probab=99.25  E-value=1.3e-07  Score=88.37  Aligned_cols=306  Identities=11%  Similarity=-0.001  Sum_probs=167.5

Q ss_pred             HHHHHHHHHHHHHcCCchhHHHHHHHHHhCC-CccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 012126          130 PSLFTYLIKIYAESNLPDRALKTFRSMLEFN-CKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMM  208 (470)
Q Consensus       130 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  208 (470)
                      ...|..+...+...|+.+.+.+.+....... ..++......+........|++++|.+++++..+..+. |...+.. .
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~-~   83 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR-DLLALKL-H   83 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHH-h
Confidence            4445555666666666666655555544321 12233333333344444566677777777777665322 3333332 2


Q ss_pred             HHHHh----cCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 012126          209 RAFCF----NGDISIAYTLFNKMFERGVMP-DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR  283 (470)
Q Consensus       209 ~~~~~----~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  283 (470)
                      ..+..    .+..+.+.+.+...  ....| .......+...+...|++++|.+.+++..+.... +...+..+..++..
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i~~~  160 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPLW--APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPD-DAWAVHAVAHVLEM  160 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhcc--CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHH
Confidence            22222    34444444444431  11222 2334445556777788888888888888776543 45667777778888


Q ss_pred             cCCHHHHHHHHHHHHHcCC-CCCH--HHHHHHHHHHHhcCCHhHHHHHHHhchhCCC-CCCHHHH-H--HHHHHHHhcCC
Q 012126          284 KKKLREAYKLLCRMKVKGC-NPDI--VHYNTVVLGFCREGRAIDACKVLEDMPSNGC-LPNLVSY-R--TLVGGLCDQGM  356 (470)
Q Consensus       284 ~~~~~~a~~~~~~m~~~~~-~~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~-~--~li~~~~~~g~  356 (470)
                      .|++++|...+++...... .++.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+...|.
T Consensus       161 ~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~  240 (355)
T cd05804         161 QGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGH  240 (355)
T ss_pred             cCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCC
Confidence            8888888888887766421 1222  2345677778888888888888888654321 1111111 1  22333333443


Q ss_pred             hHHHHHH--H-HHHHHCC-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC------C--CHHHHHHHHHHHHcC
Q 012126          357 FDVAKKY--M-QLMISKG-FSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEA------P--HEDTWVMIVPQICAG  424 (470)
Q Consensus       357 ~~~a~~~--~-~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~------p--~~~~~~~l~~~~~~~  424 (470)
                      .+.+..+  + ....... .............++...|+.++|..+++.+......      .  ..........++...
T Consensus       241 ~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~  320 (355)
T cd05804         241 VDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAE  320 (355)
T ss_pred             CChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHc
Confidence            3333332  1 1111110 0111122235666778889999999999887653211      0  111222223345688


Q ss_pred             CcHHHHHHHHHHHHHc
Q 012126          425 EEMEKLGEVLNEIVKV  440 (470)
Q Consensus       425 g~~~~a~~~~~~m~~~  440 (470)
                      |++++|.+.+.+.+..
T Consensus       321 g~~~~A~~~L~~al~~  336 (355)
T cd05804         321 GNYATALELLGPVRDD  336 (355)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            9999999999888764

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.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.25  E-value=3.8e-08  Score=85.29  Aligned_cols=362  Identities=12%  Similarity=0.052  Sum_probs=205.8

Q ss_pred             HHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCc
Q 012126           67 KLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLP  146 (470)
Q Consensus        67 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  146 (470)
                      +-+.+.+|+..|..+++.....+. .....+-..+...+.+.|++++|...+..+.... .++...+..|.-.+.-.|.+
T Consensus        30 edfls~rDytGAislLefk~~~~~-EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   30 EDFLSNRDYTGAISLLEFKLNLDR-EEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHhcccchhHHHHHHHhhccch-hhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            445677889999999887764332 1122333445556678899999999998887765 55666777777777777888


Q ss_pred             hhHHHHHHHHHhCCCccCHHHHHHHHHHHHh------------------------------cCCChhhHHHHHHHHHHCC
Q 012126          147 DRALKTFRSMLEFNCKPLPKQLNRILELLVT------------------------------HRNYLRPAFDLFKSAHKHG  196 (470)
Q Consensus       147 ~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~------------------------------~~~~~~~a~~~~~~~~~~~  196 (470)
                      .+|..+-....+      ......++-.++.                              .+-.+++|++++..+...+
T Consensus       108 ~eA~~~~~ka~k------~pL~~RLlfhlahklndEk~~~~fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn  181 (557)
T KOG3785|consen  108 IEAKSIAEKAPK------TPLCIRLLFHLAHKLNDEKRILTFHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQDN  181 (557)
T ss_pred             HHHHHHHhhCCC------ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            887776554322      1111111111111                              1123678888888887654


Q ss_pred             CCCCHHHHHHHH-HHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHH-------------
Q 012126          197 VLPNTKSYNIMM-RAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDM-------------  262 (470)
Q Consensus       197 ~~~~~~~~~~li-~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-------------  262 (470)
                        |+-...|.-+ -+|.+..-++-+.++++-.... ++-+....|.......+.=+-..|.+-..++             
T Consensus       182 --~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~  258 (557)
T KOG3785|consen  182 --PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEY  258 (557)
T ss_pred             --hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHH
Confidence              4555555443 4556777777777777776654 2224444444433333321111111111111             


Q ss_pred             -HhCCC------------CCC-----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH--------------
Q 012126          263 -LNKGF------------VPD-----TLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYN--------------  310 (470)
Q Consensus       263 -~~~~~------------~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--------------  310 (470)
                       .++++            .|.     +.+-..|+-.|.+.+++++|..+.+.+.-.  .|-.....              
T Consensus       259 l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSr  336 (557)
T KOG3785|consen  259 LCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSR  336 (557)
T ss_pred             HHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcH
Confidence             11110            011     112233455577788888888777665421  12111111              


Q ss_pred             ---------------------------HHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 012126          311 ---------------------------TVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKY  363 (470)
Q Consensus       311 ---------------------------~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  363 (470)
                                                 .+..++.-..++++++..++.+...-..-|...|| +.++++..|++.+|+++
T Consensus       337 eHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEel  415 (557)
T KOG3785|consen  337 EHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEEL  415 (557)
T ss_pred             HHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHH
Confidence                                       11222222234444554444444432223444444 67888889999999999


Q ss_pred             HHHHHHCCCCCCHHHHH-HHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHcCCcHHHHHHHHHHHHHcc
Q 012126          364 MQLMISKGFSPHFSVSH-ALIKGFCNVGKVDEACGVLEELLKAGEAPHEDT-WVMIVPQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       364 ~~~~~~~~~~~~~~~~~-~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      |-.+....++ |..+|. .|.++|.+++.++.|++++-++..   .-+..+ ...+..-|.+.+.+=-|-+.|+++...+
T Consensus       416 f~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD  491 (557)
T KOG3785|consen  416 FIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEILD  491 (557)
T ss_pred             HhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC
Confidence            9777654444 344554 556889999999999887755533   122223 3344566788898888889999888665


Q ss_pred             ccCCc
Q 012126          442 IKGDT  446 (470)
Q Consensus       442 ~~p~~  446 (470)
                      ..|..
T Consensus       492 P~pEn  496 (557)
T KOG3785|consen  492 PTPEN  496 (557)
T ss_pred             CCccc
Confidence            55543

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

Probab=99.24  E-value=2.7e-07  Score=81.77  Aligned_cols=297  Identities=14%  Similarity=0.067  Sum_probs=202.7

Q ss_pred             HHHHHHHH--cCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          135 YLIKIYAE--SNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFC  212 (470)
Q Consensus       135 ~li~~~~~--~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  212 (470)
                      .-+.+++.  .++...|...+-.+.....-|+....-.-+..+....|+.++|...|++....++. +........-.+.
T Consensus       199 ~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy-~i~~MD~Ya~LL~  277 (564)
T KOG1174|consen  199 KWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPD-NVEAMDLYAVLLG  277 (564)
T ss_pred             HHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChh-hhhhHHHHHHHHH
Confidence            34444443  34555566666555555556666666555555555777788888888888765421 2222222333445


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 012126          213 FNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYK  292 (470)
Q Consensus       213 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  292 (470)
                      ..|+++....+...+.... .-+...|..-+......++++.|+.+-++.++.+.. +...+-.-...+...++.++|.-
T Consensus       278 ~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~I  355 (564)
T KOG1174|consen  278 QEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVI  355 (564)
T ss_pred             hccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHH
Confidence            6788887777777765542 113344444445555678888899888888876543 45555555567778899999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHH-HHHH-hcCChHHHHHHHHHHHHC
Q 012126          293 LLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLV-GGLC-DQGMFDVAKKYMQLMISK  370 (470)
Q Consensus       293 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li-~~~~-~~g~~~~a~~~~~~~~~~  370 (470)
                      .|+...... +-+...|..|+..|...|++.+|.-+-++..+. +..+..+...+. ..|. ....-++|.+++++..+.
T Consensus       356 aFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~  433 (564)
T KOG1174|consen  356 AFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI  433 (564)
T ss_pred             HHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc
Confidence            999887652 346789999999999999999988777665443 233555555442 2232 223347888888887764


Q ss_pred             CCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          371 GFSPH-FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       371 ~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                        .|+ ....+.+...+...|..+++..+++..+.  ..||....+.|.+.+...+.+.+|++.|...+..
T Consensus       434 --~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  434 --NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             --CCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence              444 34667778888999999999999999877  4589999999999999999999999998888743

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

Probab=99.24  E-value=2e-07  Score=87.24  Aligned_cols=97  Identities=21%  Similarity=0.274  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 012126          343 SYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH-FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQI  421 (470)
Q Consensus       343 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  421 (470)
                      ++..+++.+-..|+++.|..+++..+++  .|+ ...|..=.+.+...|++++|..++++..+.+. +|...-..-+.-.
T Consensus       373 t~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~INsKcAKYm  449 (700)
T KOG1156|consen  373 TLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRAINSKCAKYM  449 (700)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHHHHHHHHHHH
Confidence            3445667778888999999988888775  444 23455555778888999999999988877642 3544444556666


Q ss_pred             HcCCcHHHHHHHHHHHHHccc
Q 012126          422 CAGEEMEKLGEVLNEIVKVEI  442 (470)
Q Consensus       422 ~~~g~~~~a~~~~~~m~~~~~  442 (470)
                      .++++.++|.++....-+.|.
T Consensus       450 LrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  450 LRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHccccHHHHHHHHHhhhccc
Confidence            788888888888888877765

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

Probab=99.23  E-value=6.7e-08  Score=87.32  Aligned_cols=349  Identities=12%  Similarity=0.047  Sum_probs=221.9

Q ss_pred             HHHHHHccCCchHHHHHHHHHhhCCCCCC-HHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHh--
Q 012126          101 LILKLGRAKYFSLIDDILITLKSEHYPVT-PSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVT--  177 (470)
Q Consensus       101 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~--  177 (470)
                      ....|.+.|.+++|++.+.+.++..  |+ +..|.....+|...|++++..+.-.+.++.  .|+-  ...+++....  
T Consensus       121 ~GN~~f~~kkY~eAIkyY~~AI~l~--p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y--~KAl~RRA~A~E  194 (606)
T KOG0547|consen  121 KGNKFFRNKKYDEAIKYYTQAIELC--PDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDY--VKALLRRASAHE  194 (606)
T ss_pred             hhhhhhhcccHHHHHHHHHHHHhcC--CCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHH--HHHHHHHHHHHH
Confidence            3456889999999999999999875  55 777888999999999999988877777663  3432  1111111110  


Q ss_pred             cCCChh----------------------hHHHHHHH--------HHH-CC--CCCCHHHHHHHHHHHHh-----------
Q 012126          178 HRNYLR----------------------PAFDLFKS--------AHK-HG--VLPNTKSYNIMMRAFCF-----------  213 (470)
Q Consensus       178 ~~~~~~----------------------~a~~~~~~--------~~~-~~--~~~~~~~~~~li~~~~~-----------  213 (470)
                      ..|.++                      -+.+++..        -.+ .+  +-|+....++....+-.           
T Consensus       195 ~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~  274 (606)
T KOG0547|consen  195 QLGKFDEALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSD  274 (606)
T ss_pred             hhccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCc
Confidence            011111                      12222221        111 11  22343333333322210           


Q ss_pred             --------------cC---ChhHHHHHHHHHHHC---CCCCC---------HHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 012126          214 --------------NG---DISIAYTLFNKMFER---GVMPD---------VESYRILMQGLCRKSQVNRAVDLLEDMLN  264 (470)
Q Consensus       214 --------------~g---~~~~a~~~~~~m~~~---~~~p~---------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  264 (470)
                                    .+   .+..|...+.+-...   ....+         ..+...-...+.-.|+.-.|.+-|+..+.
T Consensus       275 ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~  354 (606)
T KOG0547|consen  275 KSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIK  354 (606)
T ss_pred             cchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHh
Confidence                          01   222333322221111   01111         22222223344557889999999999988


Q ss_pred             CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHH
Q 012126          265 KGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSY  344 (470)
Q Consensus       265 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  344 (470)
                      ....++. .|--+..+|....+.++....|....+.+ +-++.+|..-.+.+.-.+++++|..=|++..... +-+...|
T Consensus       355 l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~~~~  431 (606)
T KOG0547|consen  355 LDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PENAYAY  431 (606)
T ss_pred             cCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhhHHH
Confidence            7655333 36666778999999999999999998874 3367778888888888899999999999988753 1245566


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC-----CCCCHHHH--HHH
Q 012126          345 RTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAG-----EAPHEDTW--VMI  417 (470)
Q Consensus       345 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~~p~~~~~--~~l  417 (470)
                      ..+..+..+.+.+++++..|++.+++ ++.-+.+|+.....+...++++.|.+.|+..++..     +..+...+  ..+
T Consensus       432 iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~  510 (606)
T KOG0547|consen  432 IQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKAL  510 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhH
Confidence            66777777899999999999999886 66678899999999999999999999999987642     11122222  222


Q ss_pred             HHHHHcCCcHHHHHHHHHHHHHccccCCceeeecccchhhHhhHH
Q 012126          418 VPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIGK  462 (470)
Q Consensus       418 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~  462 (470)
                      +..- =.+++..|.+++++..+.  .|.-......++-.....|+
T Consensus       511 l~~q-wk~d~~~a~~Ll~KA~e~--Dpkce~A~~tlaq~~lQ~~~  552 (606)
T KOG0547|consen  511 LVLQ-WKEDINQAENLLRKAIEL--DPKCEQAYETLAQFELQRGK  552 (606)
T ss_pred             hhhc-hhhhHHHHHHHHHHHHcc--CchHHHHHHHHHHHHHHHhh
Confidence            2222 238999999999999854  45444444444444444443

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

Probab=99.21  E-value=7.2e-07  Score=83.50  Aligned_cols=363  Identities=10%  Similarity=0.103  Sum_probs=213.2

Q ss_pred             HHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCc
Q 012126           67 KLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLP  146 (470)
Q Consensus        67 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  146 (470)
                      ..+-.+++.......|+.++..-.+......|...+......+-.+-+..++++..+-    ++..-+--|..+++.++.
T Consensus       110 q~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~d~~  185 (835)
T KOG2047|consen  110 QFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKSDRL  185 (835)
T ss_pred             HHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhccch
Confidence            4556788888888888888765444445567888888788888888889999888764    445567778888899999


Q ss_pred             hhHHHHHHHHHhCC------CccCHHHHHHHHHHHHhcCCC--hhhHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCC
Q 012126          147 DRALKTFRSMLEFN------CKPLPKQLNRILELLVTHRNY--LRPAFDLFKSAHKHGVLPN--TKSYNIMMRAFCFNGD  216 (470)
Q Consensus       147 ~~A~~~~~~~~~~~------~~p~~~~~~~ll~~~~~~~~~--~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~  216 (470)
                      ++|.+.+...+...      .+.+...|+.+-..+.++.+.  --.+..+++.+...  -+|  -..|+.|.+-|.+.|.
T Consensus       186 ~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~  263 (835)
T KOG2047|consen  186 DEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGL  263 (835)
T ss_pred             HHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhh
Confidence            99999888776421      123334455555555443321  11233444444322  234  3467888999999999


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH------------------------------------------------
Q 012126          217 ISIAYTLFNKMFERGVMPDVESYRILMQGLCR------------------------------------------------  248 (470)
Q Consensus       217 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~------------------------------------------------  248 (470)
                      +++|.++|++....-.  ++.-|..+..+|+.                                                
T Consensus       264 ~ekarDvyeeai~~v~--tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVl  341 (835)
T KOG2047|consen  264 FEKARDVYEEAIQTVM--TVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVL  341 (835)
T ss_pred             hHHHHHHHHHHHHhhe--ehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHH
Confidence            9999998887654311  11122222222211                                                


Q ss_pred             ------------------cCChHHHHHHHHHHHhCCCCC------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 012126          249 ------------------KSQVNRAVDLLEDMLNKGFVP------DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNP  304 (470)
Q Consensus       249 ------------------~~~~~~a~~~~~~~~~~~~~~------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~  304 (470)
                                        .|+..+-+..|.++++. +.|      -...|..+...|-..|+++.|..+|++..+-..+-
T Consensus       342 LRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~  420 (835)
T KOG2047|consen  342 LRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKT  420 (835)
T ss_pred             HhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccc
Confidence                              22333334444443322 111      12346677788888999999999999887764332


Q ss_pred             C---HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCC----------C-------CHHHHHHHHHHHHhcCChHHHHHHH
Q 012126          305 D---IVHYNTVVLGFCREGRAIDACKVLEDMPSNGCL----------P-------NLVSYRTLVGGLCDQGMFDVAKKYM  364 (470)
Q Consensus       305 ~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~----------p-------~~~~~~~li~~~~~~g~~~~a~~~~  364 (470)
                      -   ..+|-.-..+-.+..+++.|+++++......-.          |       +...|...++.-...|-++....++
T Consensus       421 v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vY  500 (835)
T KOG2047|consen  421 VEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVY  500 (835)
T ss_pred             hHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHH
Confidence            2   234555555556778888888888876442111          1       2234555555556677888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHc---CCcHHHHHHHHHHHHH
Q 012126          365 QLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHE-DTWVMIVPQICA---GEEMEKLGEVLNEIVK  439 (470)
Q Consensus       365 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~---~g~~~~a~~~~~~m~~  439 (470)
                      +++++..+.-. .+.-.....+-.+.-++++.++|++-+..--.|++ ..|+..+..+.+   .-+.+.|..+|+++++
T Consensus       501 driidLriaTP-qii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~  578 (835)
T KOG2047|consen  501 DRIIDLRIATP-QIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD  578 (835)
T ss_pred             HHHHHHhcCCH-HHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh
Confidence            88877543221 11111111223344456666666554443222333 255555444432   2356666677776666

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

Probab=99.19  E-value=2.8e-07  Score=81.67  Aligned_cols=272  Identities=13%  Similarity=-0.004  Sum_probs=206.4

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHH
Q 012126          125 HYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSY  204 (470)
Q Consensus       125 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  204 (470)
                      -++.+......+...+...|+.++|+..|++...  +.|+..+---+-..+....|+++....+...+....- -....|
T Consensus       227 ~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~--~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~-~ta~~w  303 (564)
T KOG1174|consen  227 TLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLC--ANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVK-YTASHW  303 (564)
T ss_pred             cCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhh--CChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhh-cchhhh
Confidence            4678899999999999999999999999998876  4466555444445555577778888888888876431 244556


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 012126          205 NIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRK  284 (470)
Q Consensus       205 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  284 (470)
                      -.-.......+++..|+.+-++.++.+.. +...|-.-...+...++.++|.-.|+......+- +...|..|+.+|...
T Consensus       304 fV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~-rL~~Y~GL~hsYLA~  381 (564)
T KOG1174|consen  304 FVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLAPY-RLEIYRGLFHSYLAQ  381 (564)
T ss_pred             hhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcchh-hHHHHHHHHHHHHhh
Confidence            55666667889999999999888876433 4555555556788899999999999998776432 778999999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHH-hcCCHhHHHHHHHhchhCCCCCC-HHHHHHHHHHHHhcCChHHHH
Q 012126          285 KKLREAYKLLCRMKVKGCNPDIVHYNTVV-LGFC-REGRAIDACKVLEDMPSNGCLPN-LVSYRTLVGGLCDQGMFDVAK  361 (470)
Q Consensus       285 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li-~~~~-~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~  361 (470)
                      |.+.+|..+-+...+. +..+..+...+. ..+. ....-++|.++++.....  .|+ ....+.+...|...|..+.+.
T Consensus       382 ~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i  458 (564)
T KOG1174|consen  382 KRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDII  458 (564)
T ss_pred             chHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHH
Confidence            9999988776655443 123444444432 2222 223356788898887764  465 445667778889999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 012126          362 KYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAG  406 (470)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  406 (470)
                      .+++.....  .||....+.|.+.+...+.+.+|.+.|...++.+
T Consensus       459 ~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  459 KLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             HHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            999998874  7899999999999999999999999999998854

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.18  E-value=2.3e-08  Score=94.27  Aligned_cols=198  Identities=16%  Similarity=0.109  Sum_probs=120.3

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHC-----CC-CC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhC-----CCC-CCH-
Q 012126          206 IMMRAFCFNGDISIAYTLFNKMFER-----GV-MP-DVESYRILMQGLCRKSQVNRAVDLLEDMLNK-----GFV-PDT-  271 (470)
Q Consensus       206 ~li~~~~~~g~~~~a~~~~~~m~~~-----~~-~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~-~~~-  271 (470)
                      .+...|...+++++|..+|+++..-     |- .| -..+++.|..+|.+.|++++|...++...+-     |.. |.+ 
T Consensus       246 ~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~  325 (508)
T KOG1840|consen  246 ILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVA  325 (508)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHH
Confidence            4556677777777777777766532     21 11 2345566666777777777766666654421     111 121 


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCC----CHHHHHHHHHHHHhcCCHhHHHHHHHhchhC----CC--C
Q 012126          272 LSYTTLLNSLCRKKKLREAYKLLCRMKVK---GCNP----DIVHYNTVVLGFCREGRAIDACKVLEDMPSN----GC--L  338 (470)
Q Consensus       272 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~--~  338 (470)
                      ..++.+...++..+++++|..+++...+.   -..+    -..+++.|...|...|++++|.+++++....    +-  .
T Consensus       326 ~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~  405 (508)
T KOG1840|consen  326 AQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKD  405 (508)
T ss_pred             HHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcC
Confidence            23455566667777777777777654332   1111    2356777777788888888888777776442    11  1


Q ss_pred             C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHH----CCC-CC-CHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 012126          339 P-NLVSYRTLVGGLCDQGMFDVAKKYMQLMIS----KGF-SP-HFSVSHALIKGFCNVGKVDEACGVLEELL  403 (470)
Q Consensus       339 p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~-~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~  403 (470)
                      + ....++.|...|.+.+..++|.++|.+...    .|. .| ...+|..|...|...|++++|.++.+...
T Consensus       406 ~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  406 YGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            1 234566677777777777777777766443    221 12 24577778888888888888888777664

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.17  E-value=6.1e-08  Score=87.45  Aligned_cols=224  Identities=11%  Similarity=-0.018  Sum_probs=135.4

Q ss_pred             hhhHHHHHHHHHHCC-CCC--CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHH
Q 012126          182 LRPAFDLFKSAHKHG-VLP--NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDL  258 (470)
Q Consensus       182 ~~~a~~~~~~~~~~~-~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  258 (470)
                      .+.++.-+.+++... ..|  ....|..+...|...|+.++|...|++..+..+. +...|+.+...+...|++++|++.
T Consensus        42 ~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~~~  120 (296)
T PRK11189         42 QEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAYEA  120 (296)
T ss_pred             HHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Confidence            455555555555322 111  2345666777777888888888888887776543 577778888888888888888888


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCC
Q 012126          259 LEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCL  338 (470)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  338 (470)
                      |+...+.... +..++..+..++...|++++|.+.|+...+.  .|+..........+...++.++|...+.+..... .
T Consensus       121 ~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~  196 (296)
T PRK11189        121 FDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-D  196 (296)
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-C
Confidence            8888776544 4566777777777788888888888887765  3433211222222345567888888886644321 2


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC---CC--C-CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHH
Q 012126          339 PNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK---GF--S-PHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHED  412 (470)
Q Consensus       339 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~--~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  412 (470)
                      |+...+ .+  .....|+...+ +.++.+.+.   ..  . .....|..+...+.+.|++++|...|++.++.++ ||..
T Consensus       197 ~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~-~~~~  271 (296)
T PRK11189        197 KEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV-YNFV  271 (296)
T ss_pred             ccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-chHH
Confidence            222221 12  22334555443 244444321   10  1 1234677777888888888888888888877542 2444


Q ss_pred             HHH
Q 012126          413 TWV  415 (470)
Q Consensus       413 ~~~  415 (470)
                      -+.
T Consensus       272 e~~  274 (296)
T PRK11189        272 EHR  274 (296)
T ss_pred             HHH
Confidence            333

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

Probab=99.16  E-value=9.8e-08  Score=87.85  Aligned_cols=374  Identities=10%  Similarity=-0.017  Sum_probs=257.1

Q ss_pred             HHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCC----CCCHHHHHHHHHHHH
Q 012126           66 QKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHY----PVTPSLFTYLIKIYA  141 (470)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~li~~~~  141 (470)
                      +.++....+.++|...|..+...+  .-..+.+..++....-     .+.+.++.+.....    ..+......+.....
T Consensus       148 gk~y~al~n~~~ar~~Y~~Al~~D--~~c~Ea~~~lvs~~ml-----t~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~  220 (611)
T KOG1173|consen  148 GKVYVALDNREEARDKYKEALLAD--AKCFEAFEKLVSAHML-----TAQEEFELLESLDLAMLTKEDVERLEILYELKL  220 (611)
T ss_pred             eehhhhhccHHHHHHHHHHHHhcc--hhhHHHHHHHHHHHhc-----chhHHHHHHhcccHHhhhhhHHHHHHHHHHhhh
Confidence            456667788889999999887543  1233444444433221     22222333322211    123333333333331


Q ss_pred             HcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHH
Q 012126          142 ESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAY  221 (470)
Q Consensus       142 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  221 (470)
                      ....-+.....-.+..-.+..-+......-...++ .+.++.+..++++.+.+... +....+..-|.++...|+..+-.
T Consensus       221 ~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad~~y-~~c~f~~c~kit~~lle~dp-fh~~~~~~~ia~l~el~~~n~Lf  298 (611)
T KOG1173|consen  221 CKNRNEESLTRNEDESLIGLAENLDLLAEKADRLY-YGCRFKECLKITEELLEKDP-FHLPCLPLHIACLYELGKSNKLF  298 (611)
T ss_pred             hhhccccccccCchhhhhhhhhcHHHHHHHHHHHH-HcChHHHHHHHhHHHHhhCC-CCcchHHHHHHHHHHhcccchHH
Confidence            11111111111111111123334444444455555 45569999999999988653 35566666677889999988888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 012126          222 TLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKG  301 (470)
Q Consensus       222 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  301 (470)
                      .+=.++.+.-+. ...+|-.+.--|...|...+|.+.|.+....+.. =...|-.+...|+-.|..++|...+....+. 
T Consensus       299 ~lsh~LV~~yP~-~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-  375 (611)
T KOG1173|consen  299 LLSHKLVDLYPS-KALSWFAVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-  375 (611)
T ss_pred             HHHHHHHHhCCC-CCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-
Confidence            888888887543 7789999988899999999999999998765433 2346788888999999999999988877553 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----C--CCCC
Q 012126          302 CNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK----G--FSPH  375 (470)
Q Consensus       302 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~--~~~~  375 (470)
                      ++-..--+--+.--|.+.+..+.|.++|.+.... .+-|+..++-+.......+.+.+|..+|+..+..    +  ..-.
T Consensus       376 ~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w  454 (611)
T KOG1173|consen  376 MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFW  454 (611)
T ss_pred             ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccch
Confidence            1111112223445588899999999999998774 3446777887777777889999999999887631    1  1124


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCceeeecccch
Q 012126          376 FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGL  455 (470)
Q Consensus       376 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~  455 (470)
                      ..+++.|..+|.+.+.+++|+..++..+... +-+..++.++.-.|...|+++.|.+.|.+.+  .+.||..+...+++.
T Consensus       455 ~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~  531 (611)
T KOG1173|consen  455 EPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKL  531 (611)
T ss_pred             hHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHH
Confidence            5678899999999999999999999998864 4488999999999999999999999999998  788998777777664

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.14  E-value=4e-08  Score=88.59  Aligned_cols=220  Identities=11%  Similarity=-0.025  Sum_probs=158.6

Q ss_pred             cCChhHHHHHHHHHHHCC-CCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 012126          214 NGDISIAYTLFNKMFERG-VMP--DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREA  290 (470)
Q Consensus       214 ~g~~~~a~~~~~~m~~~~-~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  290 (470)
                      .+..+.++.-+.+++... ..|  ....|..+...|...|+.++|...|++..+..+. +...|+.+...+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHH
Confidence            356677788887877542 222  2456778888899999999999999999987654 788999999999999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 012126          291 YKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK  370 (470)
Q Consensus       291 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  370 (470)
                      ...|++..+.. +-+..+|..+..++...|++++|++.++...+.  .|+..........+...++.++|...+.+....
T Consensus       118 ~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        118 YEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            99999998863 224677888888899999999999999998885  354332222222345677899999999776543


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC---CCC---CCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccc
Q 012126          371 GFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKA---GEA---PHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEI  442 (470)
Q Consensus       371 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~---p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  442 (470)
                      . .++... ..+.  ....|+.+++ +.++.+.+.   .+.   .....|..+...+.+.|++++|...|++.++.++
T Consensus       195 ~-~~~~~~-~~~~--~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        195 L-DKEQWG-WNIV--EFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             C-CccccH-HHHH--HHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            2 333222 2233  2335555444 344444421   111   1235799999999999999999999999997653

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.12  E-value=1.3e-06  Score=83.50  Aligned_cols=346  Identities=15%  Similarity=0.143  Sum_probs=195.1

Q ss_pred             CCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCcc-CHHHHH
Q 012126           91 FRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKP-LPKQLN  169 (470)
Q Consensus        91 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~  169 (470)
                      +.-+...|..+.-++...|+|+.+.+.|+......+. ..+.|+.+...|...|.-..|+.+++.-....-.| |...+-
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~-~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFG-EHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhh-hHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            4457788888888889999999999999887765432 55678888888888888888888887755433224 333333


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHHHHC--CC--CCCHHHHHHHHHHHHhc-----------CChhHHHHHHHHHHHCCCCC
Q 012126          170 RILELLVTHRNYLRPAFDLFKSAHKH--GV--LPNTKSYNIMMRAFCFN-----------GDISIAYTLFNKMFERGVMP  234 (470)
Q Consensus       170 ~ll~~~~~~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~~~~~p  234 (470)
                      ..-..|....+..++++++-.+....  +.  ......|..+.-+|...           ....++.+.+++..+.+.. 
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~-  476 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT-  476 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC-
Confidence            33344444444444444444444331  00  01112222222222111           1123334444444333222 


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CC-----------
Q 012126          235 DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK-GC-----------  302 (470)
Q Consensus       235 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~-----------  302 (470)
                      |.....-+.--|+..++.+.|.+..++..+.+-.-+...|..|.-.+...+++.+|+.+.+...+. |.           
T Consensus       477 dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i  556 (799)
T KOG4162|consen  477 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHI  556 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhh
Confidence            111111122223334444444444444444332333444444443444344444444333322111 00           


Q ss_pred             --------------------------------------------------------------------------------
Q 012126          303 --------------------------------------------------------------------------------  302 (470)
Q Consensus       303 --------------------------------------------------------------------------------  302 (470)
                                                                                                      
T Consensus       557 ~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s  636 (799)
T KOG4162|consen  557 ELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSS  636 (799)
T ss_pred             hhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcc
Confidence                                                                                            


Q ss_pred             --C--CC------HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 012126          303 --N--PD------IVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF  372 (470)
Q Consensus       303 --~--~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  372 (470)
                        .  |+      ...|......+.+.+..++|...+.+.... .......|......+...|.+++|.+.|......+ 
T Consensus       637 ~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld-  714 (799)
T KOG4162|consen  637 TVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD-  714 (799)
T ss_pred             cccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC-
Confidence              0  00      011223334445555555555555554442 12234445555556667788888888888877743 


Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHH--HHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcc
Q 012126          373 SPHFSVSHALIKGFCNVGKVDEACG--VLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       373 ~~~~~~~~~li~~~~~~g~~~~a~~--~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      +.+.....++..++...|+..-|..  ++.++++.+. .+...|..+...+.+.|+.+.|.++|.-..+..
T Consensus       715 P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp-~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  715 PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDP-LNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence            2345578889999999998888877  9999999764 378899999999999999999999999988654

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

Probab=99.12  E-value=2.3e-06  Score=80.39  Aligned_cols=362  Identities=14%  Similarity=0.113  Sum_probs=229.5

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 012126           63 CRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAE  142 (470)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  142 (470)
                      ..++-+.+...++++|+..|+.+....  +.+...+.-+.-.-++.|+++........+.+.. +.....|..++.++.-
T Consensus        79 Hv~gl~~R~dK~Y~eaiKcy~nAl~~~--~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L  155 (700)
T KOG1156|consen   79 HVLGLLQRSDKKYDEAIKCYRNALKIE--KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHL  155 (700)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHH
Confidence            356677778888888888888887655  4566677666666677788887777777766653 3445567778888888


Q ss_pred             cCCchhHHHHHHHHHhCC-CccCHHHHHHHHHHHHh-----cCCChhhHHHHHHHHHHCCCCCCHHHH-HHHHHHHHhcC
Q 012126          143 SNLPDRALKTFRSMLEFN-CKPLPKQLNRILELLVT-----HRNYLRPAFDLFKSAHKHGVLPNTKSY-NIMMRAFCFNG  215 (470)
Q Consensus       143 ~g~~~~A~~~~~~~~~~~-~~p~~~~~~~ll~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g  215 (470)
                      .|+...|..+.++..+.. ..|+...+......+++     ..|..+.|.+.+..-...-  .|-..+ ..-...+.+.+
T Consensus       156 ~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i--~Dkla~~e~ka~l~~kl~  233 (700)
T KOG1156|consen  156 LGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQI--VDKLAFEETKADLLMKLG  233 (700)
T ss_pred             HHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHH--HHHHHHhhhHHHHHHHHh
Confidence            899999999988887643 34666666554443332     3444666666665544321  233333 34456778889


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHH-HHHHHcCChHHHH-HHHHHHHhC----------------------------
Q 012126          216 DISIAYTLFNKMFERGVMPDVESYRILM-QGLCRKSQVNRAV-DLLEDMLNK----------------------------  265 (470)
Q Consensus       216 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll-~~~~~~~~~~~a~-~~~~~~~~~----------------------------  265 (470)
                      ++++|..++..++.++  ||..-|...+ .++.+..+.-++. .+|....+.                            
T Consensus       234 ~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL  311 (700)
T KOG1156|consen  234 QLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYL  311 (700)
T ss_pred             hHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHH
Confidence            9999999999998874  4555554444 4443333333333 444443222                            


Q ss_pred             ------CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH----cC----------CCCCHH--HHHHHHHHHHhcCCHh
Q 012126          266 ------GFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKV----KG----------CNPDIV--HYNTVVLGFCREGRAI  323 (470)
Q Consensus       266 ------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~~----------~~~~~~--~~~~li~~~~~~~~~~  323 (470)
                            |+.   .++..+...|-.-...+-..++.-.+..    .|          -+|...  ++..++..|-..|+++
T Consensus       312 ~~~l~Kg~p---~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~  388 (700)
T KOG1156|consen  312 RPLLSKGVP---SVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYE  388 (700)
T ss_pred             HHHhhcCCC---chhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHH
Confidence                  211   1223333333221111111111111111    11          144443  4456778899999999


Q ss_pred             HHHHHHHhchhCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 012126          324 DACKVLEDMPSNGCLPNL-VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEEL  402 (470)
Q Consensus       324 ~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  402 (470)
                      .|...++.....  .|+. ..|..=.+.+...|++++|..++++..+.+ .+|..+-.--..-..+++++++|.++...+
T Consensus       389 ~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skF  465 (700)
T KOG1156|consen  389 VALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKF  465 (700)
T ss_pred             HHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHh
Confidence            999999998875  4553 345555678899999999999999998875 456555445566667889999999999999


Q ss_pred             HHCCCCCCHH--------HHHHH--HHHHHcCCcHHHHHHHHHHHHH
Q 012126          403 LKAGEAPHED--------TWVMI--VPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       403 ~~~~~~p~~~--------~~~~l--~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      .+.|.  +..        .|..+  ..+|.+.|++..|++-|..+.+
T Consensus       466 Tr~~~--~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  466 TREGF--GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             hhccc--chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHH
Confidence            87763  222        44444  3467788888888766665543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.09  E-value=1.4e-06  Score=92.12  Aligned_cols=338  Identities=13%  Similarity=0.029  Sum_probs=214.3

Q ss_pred             HHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCC------ccC-HHHHHHHHHHHH
Q 012126          104 KLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNC------KPL-PKQLNRILELLV  176 (470)
Q Consensus       104 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~------~p~-~~~~~~ll~~~~  176 (470)
                      .....|+++.+..++..+.......++.........+...|++++|...+......--      .+. ......++....
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            3455677777777776652221112333344555666788999999999987654210      111 122233344455


Q ss_pred             hcCCChhhHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCChhHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHH
Q 012126          177 THRNYLRPAFDLFKSAHKHGVLPNT----KSYNIMMRAFCFNGDISIAYTLFNKMFER----GV-MPDVESYRILMQGLC  247 (470)
Q Consensus       177 ~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~-~p~~~~~~~ll~~~~  247 (470)
                      ...|++++|...+++....-...+.    ...+.+...+...|++++|...+++....    |. .....++..+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            5778899999999988763211222    34456667778899999999999887643    11 111234455667788


Q ss_pred             HcCChHHHHHHHHHHHhC----CCC--C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCC--CHHHHHHHHHHH
Q 012126          248 RKSQVNRAVDLLEDMLNK----GFV--P-DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKG--CNP--DIVHYNTVVLGF  316 (470)
Q Consensus       248 ~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~~~--~~~~~~~li~~~  316 (470)
                      ..|++++|...+++....    +..  + ....+..+...+...|++++|...+++.....  ..+  ....+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            899999999998886542    211  1 22334455666777899999999998875431  112  233444566678


Q ss_pred             HhcCCHhHHHHHHHhchhCC--CCCCHH--H-H-HHHHHHHHhcCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHH
Q 012126          317 CREGRAIDACKVLEDMPSNG--CLPNLV--S-Y-RTLVGGLCDQGMFDVAKKYMQLMISKGFSPH---FSVSHALIKGFC  387 (470)
Q Consensus       317 ~~~~~~~~a~~~~~~m~~~~--~~p~~~--~-~-~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~  387 (470)
                      ...|++++|.+.+.......  ......  . . ...+..+...|+.+.|..++...........   ...+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            88999999999888875421  111110  1 0 1122344568899999998877554221111   112345667788


Q ss_pred             ccCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHcCCcHHHHHHHHHHHHHcc
Q 012126          388 NVGKVDEACGVLEELLKA----GEAPH-EDTWVMIVPQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      ..|+.++|...+++....    |..++ ..+...+..++.+.|+.++|.+.+.++++..
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            999999999999987653    32222 2356677788899999999999999998754

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

Probab=99.08  E-value=2.2e-06  Score=79.64  Aligned_cols=370  Identities=15%  Similarity=0.129  Sum_probs=203.6

Q ss_pred             HHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHH--HHHHH--HH
Q 012126           67 KLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTY--LIKIY--AE  142 (470)
Q Consensus        67 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--li~~~--~~  142 (470)
                      ......+++++|++..+.++...  +.+...+..-+-++++.++|++|..+.+.-...      .+++.  +=.+|  -+
T Consensus        20 n~~~~~~e~e~a~k~~~Kil~~~--pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~------~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   20 NRHGKNGEYEEAVKTANKILSIV--PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL------LVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHhccchHHHHHHHHHHHHHhcC--CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh------hhcchhhHHHHHHHHH
Confidence            44567889999999999987553  556677777788899999999998665542211      11111  22333  35


Q ss_pred             cCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCC------------------------
Q 012126          143 SNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVL------------------------  198 (470)
Q Consensus       143 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~------------------------  198 (470)
                      .+..|+|+..++     |..++..-...+=...+...+++++|.++|+.+.+.+..                        
T Consensus        92 lnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~  166 (652)
T KOG2376|consen   92 LNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQS  166 (652)
T ss_pred             cccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHh
Confidence            788888888877     333433322222222333555688888888888654432                        


Q ss_pred             ---CCHHHHHH---HHHHHHhcCChhHHHHHHHHHHHCC-------------CCCCHH-HHHHHHHHHHHcCChHHHHHH
Q 012126          199 ---PNTKSYNI---MMRAFCFNGDISIAYTLFNKMFERG-------------VMPDVE-SYRILMQGLCRKSQVNRAVDL  258 (470)
Q Consensus       199 ---~~~~~~~~---li~~~~~~g~~~~a~~~~~~m~~~~-------------~~p~~~-~~~~ll~~~~~~~~~~~a~~~  258 (470)
                         ....+|..   ....+...|++.+|+++++...+.+             +.-... .-.-|...+...|+.++|..+
T Consensus       167 v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~i  246 (652)
T KOG2376|consen  167 VPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSI  246 (652)
T ss_pred             ccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHH
Confidence               00112322   2334567899999999998873211             111111 122345567788999999999


Q ss_pred             HHHHHhCCCCCCH----hhHHHHHHHHHhc---------------------------------------------CCHHH
Q 012126          259 LEDMLNKGFVPDT----LSYTTLLNSLCRK---------------------------------------------KKLRE  289 (470)
Q Consensus       259 ~~~~~~~~~~~~~----~~~~~ll~~~~~~---------------------------------------------~~~~~  289 (470)
                      |...++.... |.    ..-|.|+.+-...                                             +..+.
T Consensus       247 y~~~i~~~~~-D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q  325 (652)
T KOG2376|consen  247 YVDIIKRNPA-DEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQ  325 (652)
T ss_pred             HHHHHHhcCC-CchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence            9998877543 32    1122222111000                                             01111


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHH--hcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH--
Q 012126          290 AYKLLCRMKVKGCNPDIVHYNTVVLGFC--REGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQ--  365 (470)
Q Consensus       290 a~~~~~~m~~~~~~~~~~~~~~li~~~~--~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~--  365 (470)
                      +.++-..+.  +..|. ..+.+++....  +...+..+.+++...-+....-.....-.+++.....|+++.|.+++.  
T Consensus       326 ~r~~~a~lp--~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~  402 (652)
T KOG2376|consen  326 VRELSASLP--GMSPE-SLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLF  402 (652)
T ss_pred             HHHHHHhCC--ccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            111111110  11222 22333333322  222456666666665554222223455556667778889999988888  


Q ss_pred             ------HHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC--CCCCCHH----HHHHHHHHHHcCCcHHHHHHH
Q 012126          366 ------LMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKA--GEAPHED----TWVMIVPQICAGEEMEKLGEV  433 (470)
Q Consensus       366 ------~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~----~~~~l~~~~~~~g~~~~a~~~  433 (470)
                            .+.+.+..|  .+..+++..+.+.++.+.|..++.+.+..  .-.+...    ++.-++..-.+.|+.++|..+
T Consensus       403 ~~~~~ss~~~~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~  480 (652)
T KOG2376|consen  403 LESWKSSILEAKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSL  480 (652)
T ss_pred             hhhhhhhhhhhccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHH
Confidence                  444444444  35566777777777777777777666431  0111222    333333444567888888888


Q ss_pred             HHHHHHccccCCceeeecccchh
Q 012126          434 LNEIVKVEIKGDTRIVEAGIGLE  456 (470)
Q Consensus       434 ~~~m~~~~~~p~~~~~~~~~~~~  456 (470)
                      ++++.+.+. +|..++.-++...
T Consensus       481 leel~k~n~-~d~~~l~~lV~a~  502 (652)
T KOG2376|consen  481 LEELVKFNP-NDTDLLVQLVTAY  502 (652)
T ss_pred             HHHHHHhCC-chHHHHHHHHHHH
Confidence            888886432 3444444333333

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

Probab=99.08  E-value=2.3e-07  Score=76.00  Aligned_cols=192  Identities=15%  Similarity=0.032  Sum_probs=91.4

Q ss_pred             HHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 012126          136 LIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNG  215 (470)
Q Consensus       136 li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  215 (470)
                      |.-.|...|+...|..-+++.++  ..|+......++..++...|..+.|.+.|++..+.... +-.+.|...-.+|..|
T Consensus        41 Lal~YL~~gd~~~A~~nlekAL~--~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC~qg  117 (250)
T COG3063          41 LALGYLQQGDYAQAKKNLEKALE--HDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLCAQG  117 (250)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHHhCC
Confidence            44444445555555555544444  22444434444444444444444444444444443322 4444555555555555


Q ss_pred             ChhHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 012126          216 DISIAYTLFNKMFERG-VMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLL  294 (470)
Q Consensus       216 ~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  294 (470)
                      ++++|...|++....- ..--..+|..+.-+..+.|+.+.|...|++.++.... ...+.-.+.....+.|++-.|...+
T Consensus       118 ~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~~~  196 (250)
T COG3063         118 RPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARLYL  196 (250)
T ss_pred             ChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHHHH
Confidence            5555555555554431 1112344555555555555555555555555554333 2334444455555555555555555


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhc
Q 012126          295 CRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDM  332 (470)
Q Consensus       295 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  332 (470)
                      +.....+. ++..+.-..|+.--+.|+.+.+-+.=..+
T Consensus       197 ~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL  233 (250)
T COG3063         197 ERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQL  233 (250)
T ss_pred             HHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            55554433 45555444555555555555544444433

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.08  E-value=2.4e-07  Score=78.59  Aligned_cols=290  Identities=15%  Similarity=0.096  Sum_probs=145.7

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHh
Q 012126           98 YLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVT  177 (470)
Q Consensus        98 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~  177 (470)
                      +..++..+++..++..|++++..-.+.. |.+......|..+|-...++..|-..++++-.  ..|....|...-.....
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~q--l~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQ--LHPELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hChHHHHHHHHHHHHHH
Confidence            4444555556666666666666555443 33445555566666666666666666666654  23444444433332222


Q ss_pred             cCCChhhHHHHHHHHHHCCCCCCHHHHHHHH--H--HHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMM--R--AFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVN  253 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li--~--~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  253 (470)
                      ..+.+..|+.+...|...   ++  ..+..+  .  ..-..+++..+..+.++....|   +..+.+...-...+.|+++
T Consensus        90 ~A~i~ADALrV~~~~~D~---~~--L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyE  161 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDN---PA--LHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYE  161 (459)
T ss_pred             HhcccHHHHHHHHHhcCC---HH--HHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHH
Confidence            344455566665555432   11  111111  1  1123455556666665554332   3333333333445566666


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-------------CCHH--------HHHHH
Q 012126          254 RAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCN-------------PDIV--------HYNTV  312 (470)
Q Consensus       254 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-------------~~~~--------~~~~l  312 (470)
                      .|.+-|+...+-+---....|+..+.-| +.|+.+.|++...++.+.|+.             ||+.        .-+.+
T Consensus       162 aAvqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal  240 (459)
T KOG4340|consen  162 AAVQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSAL  240 (459)
T ss_pred             HHHHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHH
Confidence            6666666655532222344555444333 346666666666666655432             1111        11222


Q ss_pred             H-------HHHHhcCCHhHHHHHHHhchhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          313 V-------LGFCREGRAIDACKVLEDMPSN-GCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIK  384 (470)
Q Consensus       313 i-------~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  384 (470)
                      +       ..+.+.|+++.|.+-+-.|.-. ....|.+|...+.-. -..+++.+...-+.-+..... -...||..++-
T Consensus       241 ~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLl  318 (459)
T KOG4340|consen  241 VEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNP-FPPETFANLLL  318 (459)
T ss_pred             HHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCC-CChHHHHHHHH
Confidence            2       2345667777777777766533 223455665544322 122344444444555554432 22356666777


Q ss_pred             HHHccCCHHHHHHHHHH
Q 012126          385 GFCNVGKVDEACGVLEE  401 (470)
Q Consensus       385 ~~~~~g~~~~a~~~~~~  401 (470)
                      .||+..-++-|-.++.+
T Consensus       319 lyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  319 LYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHhhhHHHhHHHHHHhh
Confidence            77777777777666654

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

Probab=99.06  E-value=1.4e-06  Score=81.41  Aligned_cols=202  Identities=10%  Similarity=0.015  Sum_probs=102.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-CCH--hhHHHHHH
Q 012126          203 SYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV-PDT--LSYTTLLN  279 (470)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~--~~~~~ll~  279 (470)
                      ....+...+...|++++|...+++..+.... +...+..+..++...|++++|+..+++....... ++.  ..|..+..
T Consensus       116 ~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~  194 (355)
T cd05804         116 LLGMLAFGLEEAGQYDRAEEAARRALELNPD-DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLAL  194 (355)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHH
Confidence            3344455666677777777777777665432 4555666666777777777777777766654321 222  23445666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCC-CCCHHHH-H--HHHHHHHhcCCHhHHHHH--HHhchhCCC--CCCHHHHHHHHHHH
Q 012126          280 SLCRKKKLREAYKLLCRMKVKGC-NPDIVHY-N--TVVLGFCREGRAIDACKV--LEDMPSNGC--LPNLVSYRTLVGGL  351 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~-~--~li~~~~~~~~~~~a~~~--~~~m~~~~~--~p~~~~~~~li~~~  351 (470)
                      .+...|++++|..++++...... .+..... +  .++.-+...|....+.++  +........  ............++
T Consensus       195 ~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~  274 (355)
T cd05804         195 FYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALAL  274 (355)
T ss_pred             HHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            66777777777777777643321 1111111 1  222223333332222222  111110000  11112222455566


Q ss_pred             HhcCChHHHHHHHHHHHHCCCC------C--CHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          352 CDQGMFDVAKKYMQLMISKGFS------P--HFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       352 ~~~g~~~~a~~~~~~~~~~~~~------~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      ...|+.+.|..+++.+......      .  .....-...-++...|+.++|.+.+.+.+..
T Consensus       275 ~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         275 AGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             hcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            6777777777777776552211      0  1112222223355778888888887776653

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.

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

Probab=99.04  E-value=2.4e-07  Score=75.88  Aligned_cols=186  Identities=16%  Similarity=0.060  Sum_probs=102.6

Q ss_pred             HHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCc
Q 012126           67 KLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLP  146 (470)
Q Consensus        67 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  146 (470)
                      --+..+||+..|..-++.+++.+  +.+..++..+...|-+.|..+.|.+.|+...+.. |.+-.+.|.-...+|..|++
T Consensus        43 l~YL~~gd~~~A~~nlekAL~~D--Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg~~  119 (250)
T COG3063          43 LGYLQQGDYAQAKKNLEKALEHD--PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQGRP  119 (250)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCCCh
Confidence            44556777777777777777665  4556667777777777777777777777776665 55666677777777777777


Q ss_pred             hhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHH
Q 012126          147 DRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNK  226 (470)
Q Consensus       147 ~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  226 (470)
                      ++|.+.|++.......+....-..=+..|....|+.+.|...|++.++.... ...+.-.+.+...+.|++-.|...++.
T Consensus       120 ~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~~~~~  198 (250)
T COG3063         120 EEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARLYLER  198 (250)
T ss_pred             HHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHHHHHH
Confidence            7777777776653322222222222223333344445555555544444322 233334444444444555555444444


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 012126          227 MFERGVMPDVESYRILMQGLCRKSQVNRAVD  257 (470)
Q Consensus       227 m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  257 (470)
                      ....+. ++..+.-..|..-...|+.+.+-+
T Consensus       199 ~~~~~~-~~A~sL~L~iriak~~gd~~~a~~  228 (250)
T COG3063         199 YQQRGG-AQAESLLLGIRIAKRLGDRAAAQR  228 (250)
T ss_pred             HHhccc-ccHHHHHHHHHHHHHhccHHHHHH
Confidence            444433 344444444444444444444443

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

Probab=99.03  E-value=1.6e-05  Score=74.84  Aligned_cols=368  Identities=12%  Similarity=0.088  Sum_probs=211.0

Q ss_pred             HHHHHHhcCCChHHHHHHHHHhhcCCCC-----CCCHHHHHHHHHHHHccCC---chHHHHHHHHHhhCCCCCCHHHHHH
Q 012126           64 RVQKLIASQSDPLLAKEIFDYASRQPNF-----RHSNSTYLILILKLGRAKY---FSLIDDILITLKSEHYPVTPSLFTY  135 (470)
Q Consensus        64 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~  135 (470)
                      .-...+...+++++|.+.+..+..++.+     +.+...|..+-....+.-+   --....+++.+...-...--..|.+
T Consensus       174 eyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~S  253 (835)
T KOG2047|consen  174 EYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCS  253 (835)
T ss_pred             HHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHH
Confidence            3456677888888888888877654421     2334455555554444322   2233445555444321222467899


Q ss_pred             HHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhc---------------CC------ChhhHHHHHHHHHH
Q 012126          136 LIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTH---------------RN------YLRPAFDLFKSAHK  194 (470)
Q Consensus       136 li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~---------------~~------~~~~a~~~~~~~~~  194 (470)
                      |.+.|.+.|.++.|.++|++.+..  ..+...+..+...++.-               .+      +++..+.-|+.+..
T Consensus       254 LAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~  331 (835)
T KOG2047|consen  254 LADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMN  331 (835)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHh
Confidence            999999999999999999987763  22333344443333210               00      13334444444443


Q ss_pred             CCC-----------CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC------CHHHHHHHHHHHHHcCChHHHHH
Q 012126          195 HGV-----------LPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMP------DVESYRILMQGLCRKSQVNRAVD  257 (470)
Q Consensus       195 ~~~-----------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p------~~~~~~~ll~~~~~~~~~~~a~~  257 (470)
                      .+.           .-++..|..-+.  +..|+..+...+|.+.+.. +.|      -...|..+...|-..|+++.|..
T Consensus       332 rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRv  408 (835)
T KOG2047|consen  332 RRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARV  408 (835)
T ss_pred             ccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHH
Confidence            221           113333433333  2356677777777777654 222      23457778888888999999999


Q ss_pred             HHHHHHhCCCCCC---HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----------CCCC------CHHHHHHHHHHHH
Q 012126          258 LLEDMLNKGFVPD---TLSYTTLLNSLCRKKKLREAYKLLCRMKVK-----------GCNP------DIVHYNTVVLGFC  317 (470)
Q Consensus       258 ~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----------~~~~------~~~~~~~li~~~~  317 (470)
                      +|++..+...+--   ..+|....++=.+..+++.|.++++.....           +.++      +...|...++.--
T Consensus       409 ifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleE  488 (835)
T KOG2047|consen  409 IFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEE  488 (835)
T ss_pred             HHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHH
Confidence            9998877644311   345666666666778888888888766432           1111      1223444455555


Q ss_pred             hcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHc---cCCHH
Q 012126          318 REGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH-FSVSHALIKGFCN---VGKVD  393 (470)
Q Consensus       318 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~---~g~~~  393 (470)
                      ..|-++....+|+.+.+..+.......| ...-+..+.-++++.+++++-+..=-.|+ ..+|+..+.-+.+   ...++
T Consensus       489 s~gtfestk~vYdriidLriaTPqii~N-yAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klE  567 (835)
T KOG2047|consen  489 SLGTFESTKAVYDRIIDLRIATPQIIIN-YAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLE  567 (835)
T ss_pred             HhccHHHHHHHHHHHHHHhcCCHHHHHH-HHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHH
Confidence            6677777888888887765432222222 22223445567777777776555322233 2366666655443   23578


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHH--HHcCCcHHHHHHHHHHHH
Q 012126          394 EACGVLEELLKAGEAPHEDTWVMIVPQ--ICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       394 ~a~~~~~~~~~~~~~p~~~~~~~l~~~--~~~~g~~~~a~~~~~~m~  438 (470)
                      .|..+|++.++ |++|...-+-.|+-+  -.+.|....|+.+++++-
T Consensus       568 raRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat  613 (835)
T KOG2047|consen  568 RARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERAT  613 (835)
T ss_pred             HHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            88888888887 565544433233222  124567777777777754

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.01  E-value=3.6e-06  Score=73.07  Aligned_cols=304  Identities=13%  Similarity=0.060  Sum_probs=176.0

Q ss_pred             CHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHH
Q 012126           94 SNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILE  173 (470)
Q Consensus        94 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~  173 (470)
                      +..-..-+...+...|++..|+.-|...++.+ |.+-.++-.-...|...|+..-|+.=+.+.++  .+||-.....--.
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~d-p~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARiQRg  113 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEGD-PNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARIQRG  113 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC-chhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHHHhc
Confidence            34445556677777788888887777766543 22222233344567777877777777777776  5576655544444


Q ss_pred             HHHhcCCChhhHHHHHHHHHHCCCCCC------------HHHH--HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHH
Q 012126          174 LLVTHRNYLRPAFDLFKSAHKHGVLPN------------TKSY--NIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESY  239 (470)
Q Consensus       174 ~~~~~~~~~~~a~~~~~~~~~~~~~~~------------~~~~--~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  239 (470)
                      .+.-..|.++.|..-|+.+++....-+            ...|  ...+..+.-.|+...|+.....+++..+ -|...|
T Consensus       114 ~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~-Wda~l~  192 (504)
T KOG0624|consen  114 VVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQP-WDASLR  192 (504)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCc-chhHHH
Confidence            444456667888888888776543111            1111  2234445567788888888877777633 367777


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHH----HHHH---
Q 012126          240 RILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVH----YNTV---  312 (470)
Q Consensus       240 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~----~~~l---  312 (470)
                      ..-..+|...|++..|+.=++...+..-. +..++--+-..+...|+.+.++...++.++.  .||...    |..+   
T Consensus       193 ~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv  269 (504)
T KOG0624|consen  193 QARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKV  269 (504)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHH
Confidence            77777888888888887776666554433 4455555666677778888888877777765  444322    1111   


Q ss_pred             ------HHHHHhcCCHhHHHHHHHhchhCCCCCCHHH---HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012126          313 ------VLGFCREGRAIDACKVLEDMPSNGCLPNLVS---YRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALI  383 (470)
Q Consensus       313 ------i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~---~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  383 (470)
                            +....+.+++.++++-.+...+.........   +..+-.++...|++.+|++...++++.. +.|..++.--.
T Consensus       270 ~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d-~~dv~~l~dRA  348 (504)
T KOG0624|consen  270 VKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDID-PDDVQVLCDRA  348 (504)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcC-chHHHHHHHHH
Confidence                  1112344455555555555444322111122   2233334445566666666666665531 22255555555


Q ss_pred             HHHHccCCHHHHHHHHHHHHHC
Q 012126          384 KGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      .+|.-...++.|+.-|+...+.
T Consensus       349 eA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  349 EAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             HHHhhhHHHHHHHHHHHHHHhc
Confidence            6666666666666666666553

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

Probab=98.94  E-value=2.6e-08  Score=88.58  Aligned_cols=148  Identities=19%  Similarity=0.140  Sum_probs=68.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHh----cC
Q 012126          280 SLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCD----QG  355 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g  355 (470)
                      ++...|++++|++++...      .+.......+..|.+.++++.|.+.++.|.+.+  .| .+...+..++..    .+
T Consensus       111 i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e  181 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGE  181 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTT
T ss_pred             HHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCch
Confidence            344455555555555432      133444445555555555555555555555432  22 222333333321    22


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcH-HHHHHHH
Q 012126          356 MFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEM-EKLGEVL  434 (470)
Q Consensus       356 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~-~~a~~~~  434 (470)
                      .+.+|..+|+++.+. ..++..+.+.+..+....|++++|.+++++..+.+. -+..+...++-+....|+. +.+.+++
T Consensus       182 ~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~-~~~d~LaNliv~~~~~gk~~~~~~~~l  259 (290)
T PF04733_consen  182 KYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP-NDPDTLANLIVCSLHLGKPTEAAERYL  259 (290)
T ss_dssp             CCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C-CHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHhCCChhHHHHHH
Confidence            355555555555443 344555555555555555566666555555544332 2344444455544445544 4455555


Q ss_pred             HHHH
Q 012126          435 NEIV  438 (470)
Q Consensus       435 ~~m~  438 (470)
                      .++.
T Consensus       260 ~qL~  263 (290)
T PF04733_consen  260 SQLK  263 (290)
T ss_dssp             HHCH
T ss_pred             HHHH
Confidence            5554

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.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.90  E-value=1.6e-06  Score=75.48  Aligned_cols=332  Identities=13%  Similarity=0.092  Sum_probs=181.2

Q ss_pred             hcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCC-----------------------
Q 012126           70 ASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHY-----------------------  126 (470)
Q Consensus        70 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----------------------  126 (470)
                      -..||+++|+..+..+.+.++  ++...+..+.....-.|.+.+|..+-....+..+                       
T Consensus        68 fhLgdY~~Al~~Y~~~~~~~~--~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k~pL~~RLlfhlahklndEk~~~~fh~  145 (557)
T KOG3785|consen   68 FHLGDYEEALNVYTFLMNKDD--APAELGVNLACCKFYLGQYIEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKRILTFHS  145 (557)
T ss_pred             HhhccHHHHHHHHHHHhccCC--CCcccchhHHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCcHHHHHHHHH
Confidence            457999999999999877653  4555555555444445666666655544322100                       


Q ss_pred             --CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCC-HHH
Q 012126          127 --PVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPN-TKS  203 (470)
Q Consensus       127 --~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~  203 (470)
                        ..+.+..-+|....-..-.+++|++++.+....  .|.-...|..+..|+...+.++-+.++++-..+.-  || ...
T Consensus       146 ~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~--pdStiA  221 (557)
T KOG3785|consen  146 SLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQF--PDSTIA  221 (557)
T ss_pred             HHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhC--CCcHHH
Confidence              001122223444444445678899999988774  36677788888888877777777777777666532  22 233


Q ss_pred             HHHHHHHHHhc--CChhHH--HH----------HHHHHHHCC------------CCC-----CHHHHHHHHHHHHHcCCh
Q 012126          204 YNIMMRAFCFN--GDISIA--YT----------LFNKMFERG------------VMP-----DVESYRILMQGLCRKSQV  252 (470)
Q Consensus       204 ~~~li~~~~~~--g~~~~a--~~----------~~~~m~~~~------------~~p-----~~~~~~~ll~~~~~~~~~  252 (470)
                      .|.......+.  |+..+.  .+          ..+.+.+++            +.|     -...-..|+--|.+.+++
T Consensus       222 ~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dV  301 (557)
T KOG3785|consen  222 KNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDV  301 (557)
T ss_pred             HHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccH
Confidence            33222221111  111100  00          111111110            000     011112233345555666


Q ss_pred             HHHHHHHHHHH--------------------------------------hCCCCCCHh-hHHHHHHHHHhcCCHHHHHHH
Q 012126          253 NRAVDLLEDML--------------------------------------NKGFVPDTL-SYTTLLNSLCRKKKLREAYKL  293 (470)
Q Consensus       253 ~~a~~~~~~~~--------------------------------------~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~  293 (470)
                      .+|..+.+++.                                      ..+..-|.. --.++..++.-..++++++-.
T Consensus       302 qeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~Y  381 (557)
T KOG3785|consen  302 QEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTY  381 (557)
T ss_pred             HHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHH
Confidence            66655544431                                      111111110 111222223333345555555


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHH-HHHHHHhcCChHHHHHHHHHHHHCCC
Q 012126          294 LCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRT-LVGGLCDQGMFDVAKKYMQLMISKGF  372 (470)
Q Consensus       294 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-li~~~~~~g~~~~a~~~~~~~~~~~~  372 (470)
                      +..+...-...|...| .+.++++..|.+.+|+++|-.+....++ |..+|.+ |.++|...+.++.|..++-++..   
T Consensus       382 lnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---  456 (557)
T KOG3785|consen  382 LNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNT---  456 (557)
T ss_pred             HHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---
Confidence            5555444333333334 3678888999999999999888765554 4555554 55677899999988877655432   


Q ss_pred             CCCHHH-HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 012126          373 SPHFSV-SHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTW  414 (470)
Q Consensus       373 ~~~~~~-~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  414 (470)
                      +.+... ...+..-|.+++.+--|-+.|+++...+  |+++-|
T Consensus       457 ~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD--P~pEnW  497 (557)
T KOG3785|consen  457 PSERFSLLQLIANDCYKANEFYYAAKAFDELEILD--PTPENW  497 (557)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC--CCcccc
Confidence            223333 3344467888999988999998887744  666655

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.89  E-value=6.8e-07  Score=75.91  Aligned_cols=294  Identities=13%  Similarity=0.109  Sum_probs=202.1

Q ss_pred             HHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHH-HH
Q 012126          130 PSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNI-MM  208 (470)
Q Consensus       130 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-li  208 (470)
                      ..-+++.+..+.+..++.+|++++..-.+++  |....-.+++..|+....++..|-..++++-..-  |...-|.. -.
T Consensus        10 EGeftaviy~lI~d~ry~DaI~~l~s~~Er~--p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~A   85 (459)
T KOG4340|consen   10 EGEFTAVVYRLIRDARYADAIQLLGSELERS--PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQA   85 (459)
T ss_pred             CCchHHHHHHHHHHhhHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHH
Confidence            3346677777788899999999998877754  6566666777777777778999999999998754  55555542 34


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHH--HHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC
Q 012126          209 RAFCFNGDISIAYTLFNKMFERGVMPDVESYRILM--QGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKK  286 (470)
Q Consensus       209 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  286 (470)
                      ..+-+.+.+..|+.+...|.+.   ++...-..-+  ......+|+..+..+.++....|   +..+.+.......+.|+
T Consensus        86 QSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegq  159 (459)
T KOG4340|consen   86 QSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQ  159 (459)
T ss_pred             HHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeecccc
Confidence            6667889999999999888764   1222212222  23345788889998888876443   33444444455668999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCC-------------CCHH--------HHH
Q 012126          287 LREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCL-------------PNLV--------SYR  345 (470)
Q Consensus       287 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-------------p~~~--------~~~  345 (470)
                      ++.|.+-|+...+.+.-.....||..+..| +.|+++.|++...++.+.|++             ||..        .-+
T Consensus       160 yEaAvqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~S  238 (459)
T KOG4340|consen  160 YEAAVQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQS  238 (459)
T ss_pred             HHHHHHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHH
Confidence            999999999988765555677888766555 678999999999999887754             2221        123


Q ss_pred             HHHHH-------HHhcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 012126          346 TLVGG-------LCDQGMFDVAKKYMQLMISK-GFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMI  417 (470)
Q Consensus       346 ~li~~-------~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  417 (470)
                      .++.+       +.+.|+++.|.+.+..|.-+ ....|+.|...+.-.= ..+++.+..+-+.-+++.+. -...||..+
T Consensus       239 al~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP-fP~ETFANl  316 (459)
T KOG4340|consen  239 ALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP-FPPETFANL  316 (459)
T ss_pred             HHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC-CChHHHHHH
Confidence            33333       45778888888888877532 2345666665544322 24456566666666666554 346789888


Q ss_pred             HHHHHcCCcHHHHHHHHHH
Q 012126          418 VPQICAGEEMEKLGEVLNE  436 (470)
Q Consensus       418 ~~~~~~~g~~~~a~~~~~~  436 (470)
                      +-.||+..-++.|-.++.+
T Consensus       317 LllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  317 LLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHHhhhHHHhHHHHHHhh
Confidence            8899999888888766544

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

Probab=98.86  E-value=1.8e-06  Score=80.07  Aligned_cols=229  Identities=15%  Similarity=0.082  Sum_probs=147.0

Q ss_pred             CCCChHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012126           58 PIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLI  137 (470)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  137 (470)
                      .-..|...+..+.+.|+...|.-+|+.+.+++  |-+.+.|..|....+..++-..|+..+.+..+.. |.+..+.-.|.
T Consensus       284 ~~pdPf~eG~~lm~nG~L~~A~LafEAAVkqd--P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLA  360 (579)
T KOG1125|consen  284 DHPDPFKEGCNLMKNGDLSEAALAFEAAVKQD--PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALA  360 (579)
T ss_pred             CCCChHHHHHHHHhcCCchHHHHHHHHHHhhC--hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHH
Confidence            33456677778888889999999999887665  4678889999999999999999999999988886 66788888899


Q ss_pred             HHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHH-----------HHhcCCChhhHHHHHHHHH-HCCCCCCHHHHH
Q 012126          138 KIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILEL-----------LVTHRNYLRPAFDLFKSAH-KHGVLPNTKSYN  205 (470)
Q Consensus       138 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~-----------~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~  205 (470)
                      -.|...|.-.+|+.+++.-+...  |.   |..+...           +. ....+....++|-++. ..+..+|..+..
T Consensus       361 VSytNeg~q~~Al~~L~~Wi~~~--p~---y~~l~~a~~~~~~~~~~s~~-~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~  434 (579)
T KOG1125|consen  361 VSYTNEGLQNQALKMLDKWIRNK--PK---YVHLVSAGENEDFENTKSFL-DSSHLAHIQELFLEAARQLPTKIDPDVQS  434 (579)
T ss_pred             HHHhhhhhHHHHHHHHHHHHHhC--cc---chhccccCccccccCCcCCC-CHHHHHHHHHHHHHHHHhCCCCCChhHHh
Confidence            99999999899999888765422  10   0000000           00 0001223333443333 333335666666


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 012126          206 IMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKK  285 (470)
Q Consensus       206 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  285 (470)
                      .|.-.|--.|++++|.+.|+..+...+. |..+||-|...++...+.++|+..|.++++..+. =+.+...|.-+|...|
T Consensus       435 ~LGVLy~ls~efdraiDcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~-yVR~RyNlgIS~mNlG  512 (579)
T KOG1125|consen  435 GLGVLYNLSGEFDRAVDCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQLQPG-YVRVRYNLGISCMNLG  512 (579)
T ss_pred             hhHHHHhcchHHHHHHHHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCC-eeeeehhhhhhhhhhh
Confidence            6666666666667766666666655433 5666666666666666666666666666654322 1233334455566666


Q ss_pred             CHHHHHHHHHHH
Q 012126          286 KLREAYKLLCRM  297 (470)
Q Consensus       286 ~~~~a~~~~~~m  297 (470)
                      .+++|.+.|-..
T Consensus       513 ~ykEA~~hlL~A  524 (579)
T KOG1125|consen  513 AYKEAVKHLLEA  524 (579)
T ss_pred             hHHHHHHHHHHH
Confidence            666666655443

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

Probab=98.85  E-value=4.1e-07  Score=80.98  Aligned_cols=151  Identities=17%  Similarity=0.181  Sum_probs=83.1

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH----hc
Q 012126          209 RAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLC----RK  284 (470)
Q Consensus       209 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~----~~  284 (470)
                      ..+...|++++|+++++..      -+.......+.+|.+.++++.|.+.++.|.+.+  .| .+...+..++.    ..
T Consensus       110 ~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~  180 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGG  180 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCc
Confidence            4445566666666665432      245555566666666777777777776666542  12 22222333322    23


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCCh-HHHHHH
Q 012126          285 KKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMF-DVAKKY  363 (470)
Q Consensus       285 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~  363 (470)
                      +.+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++.+..+.+ +-+..++..++.+....|+. +.+.++
T Consensus       181 e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~  258 (290)
T PF04733_consen  181 EKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERY  258 (290)
T ss_dssp             TCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHH
Confidence            3566777777776544 34566666666666777777777777776665543 22445555556555666665 556666


Q ss_pred             HHHHHHC
Q 012126          364 MQLMISK  370 (470)
Q Consensus       364 ~~~~~~~  370 (470)
                      +.++...
T Consensus       259 l~qL~~~  265 (290)
T PF04733_consen  259 LSQLKQS  265 (290)
T ss_dssp             HHHCHHH
T ss_pred             HHHHHHh
Confidence            6666553

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=98.84  E-value=4.4e-06  Score=84.95  Aligned_cols=244  Identities=11%  Similarity=0.016  Sum_probs=185.7

Q ss_pred             hHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-----CHHHHHHHHHHHHHcCChHHHHHH
Q 012126          184 PAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMP-----DVESYRILMQGLCRKSQVNRAVDL  258 (470)
Q Consensus       184 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-----~~~~~~~ll~~~~~~~~~~~a~~~  258 (470)
                      .|.++-+.++.. + -+...|-..|......+++++|.+++++.+.. +.+     -...|.++++.-...|.-+...++
T Consensus      1443 saeDferlvrss-P-NSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kV 1519 (1710)
T KOG1070|consen 1443 SAEDFERLVRSS-P-NSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKV 1519 (1710)
T ss_pred             CHHHHHHHHhcC-C-CcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHH
Confidence            344444444433 1 25678888999999999999999999998764 222     234677777777777888899999


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCC
Q 012126          259 LEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCL  338 (470)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  338 (470)
                      |+++.+.. . ....|..|...|.+.+..++|.++++.|.+. +.-....|...+..+.+.++-+.|..++.+..+.  -
T Consensus      1520 FeRAcqyc-d-~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--l 1594 (1710)
T KOG1070|consen 1520 FERACQYC-D-AYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--L 1594 (1710)
T ss_pred             HHHHHHhc-c-hHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--c
Confidence            99988752 1 3467889999999999999999999999876 2346788999999999999999999999998774  3


Q ss_pred             CC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHH--H
Q 012126          339 PN---LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHED--T  413 (470)
Q Consensus       339 p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~--~  413 (470)
                      |-   .......++.-.+.|+.+.+..+|+..... .+-....|+.++++-.++|+.+.+..+|++.+..++.|-..  .
T Consensus      1595 Pk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKff 1673 (1710)
T KOG1070|consen 1595 PKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFF 1673 (1710)
T ss_pred             chhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHH
Confidence            33   344555666667899999999999999876 34456799999999999999999999999999988776543  5


Q ss_pred             HHHHHHHHHcCCcHHHHHHHHHH
Q 012126          414 WVMIVPQICAGEEMEKLGEVLNE  436 (470)
Q Consensus       414 ~~~l~~~~~~~g~~~~a~~~~~~  436 (470)
                      |...+..--+.|+-+.+..+=.+
T Consensus      1674 fKkwLeyEk~~Gde~~vE~VKar 1696 (1710)
T KOG1070|consen 1674 FKKWLEYEKSHGDEKNVEYVKAR 1696 (1710)
T ss_pred             HHHHHHHHHhcCchhhHHHHHHH
Confidence            55556544445665544444333

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

Probab=98.84  E-value=8.5e-07  Score=82.15  Aligned_cols=251  Identities=10%  Similarity=0.038  Sum_probs=134.0

Q ss_pred             HHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhH
Q 012126          140 YAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISI  219 (470)
Q Consensus       140 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  219 (470)
                      +.+.|++.+|.-.|+..+..+  |...-.-..|...-...+.-..|+..+++..+.... |....-.|.-.|...|.-..
T Consensus       295 lm~nG~L~~A~LafEAAVkqd--P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD--PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC--hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHH
Confidence            345666666666666665532  333222222332222333345566666666655432 55566666666666666666


Q ss_pred             HHHHHHHHHHCCCC--------CCHHHHHHHHHHHHHcCChHHHHHHHHHHHh-CCCCCCHhhHHHHHHHHHhcCCHHHH
Q 012126          220 AYTLFNKMFERGVM--------PDVESYRILMQGLCRKSQVNRAVDLLEDMLN-KGFVPDTLSYTTLLNSLCRKKKLREA  290 (470)
Q Consensus       220 a~~~~~~m~~~~~~--------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a  290 (470)
                      |.+.++..+...++        ++...-..  ..+.....+....++|-++.. .+..+|..+...|.-.|.-.|++++|
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            66666665443210        00000000  112222233444444444433 33335566666666666667777777


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          291 YKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN-LVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       291 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      .+.|+..+... +-|...||.|...++...+.++|+..|.+.++  ++|+ +.....|.-+|...|.+.+|.+.|-..+.
T Consensus       450 iDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  450 VDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            77777776652 22456677777777777777777777777766  3454 22333355566777777777776655443


Q ss_pred             C---------CCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 012126          370 K---------GFSPHFSVSHALIKGFCNVGKVDEACGV  398 (470)
Q Consensus       370 ~---------~~~~~~~~~~~li~~~~~~g~~~~a~~~  398 (470)
                      .         +..++..+|..|=.++.-.++.|-+.+.
T Consensus       527 mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  527 MQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            1         1122345666665666666666544443

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

Probab=98.83  E-value=2e-06  Score=86.35  Aligned_cols=59  Identities=8%  Similarity=0.152  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 012126          203 SYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDML  263 (470)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  263 (470)
                      .+..+..+|-+.|+.++|..+|+++.+..+. |..+.|.+...|... ++++|++++.+.+
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-dL~KA~~m~~KAV  176 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-DKEKAITYLKKAI  176 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-hHHHHHHHHHHHH
Confidence            4444445555555555555555555544422 444444454444444 5555555444443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.80  E-value=4e-05  Score=70.75  Aligned_cols=362  Identities=14%  Similarity=0.074  Sum_probs=201.2

Q ss_pred             HHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCc
Q 012126           67 KLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLP  146 (470)
Q Consensus        67 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  146 (470)
                      ....+.||++.|+..|..+...+  +++...|..-..+++..|+|++|.+=-.+.++.. |.=+..|.....++.-.|++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~--p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~-p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLS--PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLN-PDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccC--CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcC-CchhhHHHHhHHHHHhcccH
Confidence            45567899999999998887665  4577788888888999999988877666555543 33456788888888888999


Q ss_pred             hhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHH------HHHHHCC---CCCCHHHHHHHHHHHHhc---
Q 012126          147 DRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLF------KSAHKHG---VLPNTKSYNIMMRAFCFN---  214 (470)
Q Consensus       147 ~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~------~~~~~~~---~~~~~~~~~~li~~~~~~---  214 (470)
                      ++|+..|.+-++  ..|+......=+.......   ..+.+.|      ..+....   .......|..++..+-+.   
T Consensus        87 ~eA~~ay~~GL~--~d~~n~~L~~gl~~a~~~~---~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~  161 (539)
T KOG0548|consen   87 EEAILAYSEGLE--KDPSNKQLKTGLAQAYLED---YAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTS  161 (539)
T ss_pred             HHHHHHHHHHhh--cCCchHHHHHhHHHhhhHH---HHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHh
Confidence            999999988776  3455443322221111000   0000000      0000000   000011111111111100   


Q ss_pred             -------CChhHHHHHHHH-----HHHC-------CCCC----------------------CHHHHHHHHHHHHHcCChH
Q 012126          215 -------GDISIAYTLFNK-----MFER-------GVMP----------------------DVESYRILMQGLCRKSQVN  253 (470)
Q Consensus       215 -------g~~~~a~~~~~~-----m~~~-------~~~p----------------------~~~~~~~ll~~~~~~~~~~  253 (470)
                             ..+..+...+..     +...       +..|                      -..-...+.++..+..+++
T Consensus       162 l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~  241 (539)
T KOG0548|consen  162 LKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFE  241 (539)
T ss_pred             hhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHH
Confidence                   001111111100     0000       0000                      0112344566666677777


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHH-------HHHHHHhcCCHhHHH
Q 012126          254 RAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNT-------VVLGFCREGRAIDAC  326 (470)
Q Consensus       254 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-------li~~~~~~~~~~~a~  326 (470)
                      .+++-+....+..  -+..-++....+|...|.+..+...-....+.|.. ...-|+.       +..+|.+.++++.++
T Consensus       242 ~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai  318 (539)
T KOG0548|consen  242 TAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAI  318 (539)
T ss_pred             HHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHH
Confidence            7777777766654  25555555556666666666555555544444321 1112222       223445556666666


Q ss_pred             HHHHhchhCCCCCCHHHH-------------------------HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 012126          327 KVLEDMPSNGCLPNLVSY-------------------------RTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHA  381 (470)
Q Consensus       327 ~~~~~m~~~~~~p~~~~~-------------------------~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  381 (470)
                      ..|.+....-..|+..+=                         ..-...+.+.|++..|...|.++++.. +-|...|..
T Consensus       319 ~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsN  397 (539)
T KOG0548|consen  319 KYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSN  397 (539)
T ss_pred             HHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHH
Confidence            666665443222222110                         011234566788888888888888875 557778888


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcc
Q 012126          382 LIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       382 li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      ..-+|.+.|.+..|+.=.+..++.+ ++....|.-=..++....++++|.+.|.+.++.+
T Consensus       398 RAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  398 RAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            8888888888888888877777753 1233355555556666778888888888887654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.74  E-value=6.6e-06  Score=79.36  Aligned_cols=315  Identities=13%  Similarity=0.132  Sum_probs=180.5

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCC--------CCCCHHHHHHHHHHHHHc
Q 012126           72 QSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEH--------YPVTPSLFTYLIKIYAES  143 (470)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~li~~~~~~  143 (470)
                      .|+-+.|.+-.+.+.       +...|..+.+.|.+.++++.|.-.+..|....        ...+.+.-....-.....
T Consensus       741 iG~MD~AfksI~~Ik-------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvLAieL  813 (1416)
T KOG3617|consen  741 IGSMDAAFKSIQFIK-------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVLAIEL  813 (1416)
T ss_pred             eccHHHHHHHHHHHh-------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHHHHHH
Confidence            455555544444332       45678888888888888887776666553321        011112222333344567


Q ss_pred             CCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 012126          144 NLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTL  223 (470)
Q Consensus       144 g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  223 (470)
                      |..++|+.+|++-...          -++..+++..|.+++|.++-+.--+..   =..||.....-+-..++++.|++.
T Consensus       814 gMlEeA~~lYr~ckR~----------DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~Aley  880 (1416)
T KOG3617|consen  814 GMLEEALILYRQCKRY----------DLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAALEY  880 (1416)
T ss_pred             hhHHHHHHHHHHHHHH----------HHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHHHH
Confidence            7888888888776552          245566667777888877765433322   224555555666667778888777


Q ss_pred             HHHH----------HHCC---------CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 012126          224 FNKM----------FERG---------VMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRK  284 (470)
Q Consensus       224 ~~~m----------~~~~---------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  284 (470)
                      |++.          ....         -.-|...|.....-.-..|+.+.|+.+|....+         |-++++..|-.
T Consensus       881 yEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~q  951 (1416)
T KOG3617|consen  881 YEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQ  951 (1416)
T ss_pred             HHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeec
Confidence            7653          1111         011334444444555556666777766665443         33455556667


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcC---------
Q 012126          285 KKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQG---------  355 (470)
Q Consensus       285 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g---------  355 (470)
                      |+.++|-++-++-      -|......+.+.|-..|++.+|..+|.+...         |...|+.|-..+         
T Consensus       952 Gk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~L~nla 1016 (1416)
T KOG3617|consen  952 GKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKDRLANLA 1016 (1416)
T ss_pred             cCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHHHHHHHH
Confidence            7777776665542      2566666788888888888888888876542         222333322222         


Q ss_pred             ------ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH--------HHHHC--CCCCCHHHHHHHHH
Q 012126          356 ------MFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLE--------ELLKA--GEAPHEDTWVMIVP  419 (470)
Q Consensus       356 ------~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~--------~~~~~--~~~p~~~~~~~l~~  419 (470)
                            +.-.|-.+|++.   |.     -+..-+..|-+.|.+.+|+++--        +++..  ....|+...+.-..
T Consensus      1017 l~s~~~d~v~aArYyEe~---g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~Rcad 1088 (1416)
T KOG3617|consen 1017 LMSGGSDLVSAARYYEEL---GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCAD 1088 (1416)
T ss_pred             hhcCchhHHHHHHHHHHc---ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHH
Confidence                  222233333322   21     12233455778888888877632        12222  23356667777777


Q ss_pred             HHHcCCcHHHHHHHHHHHH
Q 012126          420 QICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       420 ~~~~~g~~~~a~~~~~~m~  438 (470)
                      .++...++++|..++-...
T Consensus      1089 FF~~~~qyekAV~lL~~ar 1107 (1416)
T KOG3617|consen 1089 FFENNQQYEKAVNLLCLAR 1107 (1416)
T ss_pred             HHHhHHHHHHHHHHHHHHH
Confidence            7888888888887765543

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

Probab=98.74  E-value=0.00019  Score=66.45  Aligned_cols=381  Identities=10%  Similarity=0.123  Sum_probs=205.9

Q ss_pred             cCCCCCCCCChHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHH
Q 012126           52 ISNSKSPIGSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPS  131 (470)
Q Consensus        52 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  131 (470)
                      +..++.+..+-..+.+-+..+ ..+++.+.++.+...  ++.++..|..-|+...+.++|+..+.+|.+....-  .+..
T Consensus        13 ie~nP~di~sw~~lire~qt~-~~~~~R~~YEq~~~~--FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlD   87 (656)
T KOG1914|consen   13 IEENPYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV--FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLD   87 (656)
T ss_pred             HhcCCccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc--CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHh
Confidence            334555555555555554444 778888888888644  46677788888888888888888888888887664  4566


Q ss_pred             HHHHHHHHHHH-cCCchhH----HHHHHHHH-hCCCccCH-HHHHHHHHHHH--------hcCCChhhHHHHHHHHHHCC
Q 012126          132 LFTYLIKIYAE-SNLPDRA----LKTFRSML-EFNCKPLP-KQLNRILELLV--------THRNYLRPAFDLFKSAHKHG  196 (470)
Q Consensus       132 ~~~~li~~~~~-~g~~~~A----~~~~~~~~-~~~~~p~~-~~~~~ll~~~~--------~~~~~~~~a~~~~~~~~~~~  196 (470)
                      .|..-++.--+ .|+...+    .+.|+-.. +.|+.+-. ..|+..+..+-        ....+.+.+.++++++....
T Consensus        88 LW~lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tP  167 (656)
T KOG1914|consen   88 LWKLYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTP  167 (656)
T ss_pred             HHHHHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCc
Confidence            77766654433 2333332    23333322 34444432 23444333321        11224666777888777532


Q ss_pred             CCC------CHHHHHHHHHHH-------HhcCChhHHHHHHHHHHH--CCCCCCHHH---------------HHHHHHH-
Q 012126          197 VLP------NTKSYNIMMRAF-------CFNGDISIAYTLFNKMFE--RGVMPDVES---------------YRILMQG-  245 (470)
Q Consensus       197 ~~~------~~~~~~~li~~~-------~~~g~~~~a~~~~~~m~~--~~~~p~~~~---------------~~~ll~~-  245 (470)
                      +.-      |-..|..=|+..       -+...+..|.++++++..  +|......+               |-.+|.- 
T Consensus       168 m~nlEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wE  247 (656)
T KOG1914|consen  168 MHNLEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWE  247 (656)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHH
Confidence            211      112221111111       122345566666665532  121111110               2111111 


Q ss_pred             ------------------------------------------------HHHcCC-------hHHHHHHHHHHHhCCCCCC
Q 012126          246 ------------------------------------------------LCRKSQ-------VNRAVDLLEDMLNKGFVPD  270 (470)
Q Consensus       246 ------------------------------------------------~~~~~~-------~~~a~~~~~~~~~~~~~~~  270 (470)
                                                                      +...|+       .+++..+++...+.-...+
T Consensus       248 ksNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~  327 (656)
T KOG1914|consen  248 KSNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKEN  327 (656)
T ss_pred             hcCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHH
Confidence                                                            001111       1222233332222111112


Q ss_pred             HhhHHHHHHHHHhc---CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCC-CHHHHHH
Q 012126          271 TLSYTTLLNSLCRK---KKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLP-NLVSYRT  346 (470)
Q Consensus       271 ~~~~~~ll~~~~~~---~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~  346 (470)
                      ..+|..+.+.--..   ...+....+++++...-..--..+|-..++.-.+..-...|..+|.+.++.+..+ ++..+++
T Consensus       328 ~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A  407 (656)
T KOG1914|consen  328 KLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAA  407 (656)
T ss_pred             HHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHH
Confidence            22222111110001   1233444444444433212223456667777777777888888888888877666 5666777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHcC
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHE--DTWVMIVPQICAG  424 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~  424 (470)
                      ++.-+|. ++..-|.++|+.-+++ +..+.......++-+...|+-..|..+|+..+..++.++.  ..|..++.--..-
T Consensus       408 ~mEy~cs-kD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~v  485 (656)
T KOG1914|consen  408 LMEYYCS-KDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNV  485 (656)
T ss_pred             HHHHHhc-CChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhc
Confidence            7776654 6778888888765554 2334445566777777888888888888888877555554  5888888877778


Q ss_pred             CcHHHHHHHHHHHHH
Q 012126          425 EEMEKLGEVLNEIVK  439 (470)
Q Consensus       425 g~~~~a~~~~~~m~~  439 (470)
                      |+...+.++-+++..
T Consensus       486 GdL~si~~lekR~~~  500 (656)
T KOG1914|consen  486 GDLNSILKLEKRRFT  500 (656)
T ss_pred             ccHHHHHHHHHHHHH
Confidence            888888887776643

>PF12854 PPR_1: PPR repeat

Probab=98.74  E-value=1.9e-08  Score=57.03  Aligned_cols=32  Identities=44%  Similarity=1.093  Sum_probs=16.4

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhc
Q 012126          301 GCNPDIVHYNTVVLGFCREGRAIDACKVLEDM  332 (470)
Q Consensus       301 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  332 (470)
                      |+.||..+|++||.+||+.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            44455555555555555555555555555544

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

Probab=98.73  E-value=4.3e-06  Score=85.04  Aligned_cols=218  Identities=11%  Similarity=0.088  Sum_probs=174.3

Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC-CCCC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012126          224 FNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK-GFVP---DTLSYTTLLNSLCRKKKLREAYKLLCRMKV  299 (470)
Q Consensus       224 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  299 (470)
                      |++.....+ -+...|-..|......++.++|.++.++++.. ++.-   -.-.|.++++.-..-|.-+...++|++..+
T Consensus      1447 ferlvrssP-NSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcq 1525 (1710)
T KOG1070|consen 1447 FERLVRSSP-NSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQ 1525 (1710)
T ss_pred             HHHHHhcCC-CcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHH
Confidence            444444432 26677888889999999999999999998753 2211   123577777777777888999999999988


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-CCHHH
Q 012126          300 KGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFS-PHFSV  378 (470)
Q Consensus       300 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~  378 (470)
                      ..  -....|..|...|.+.+.+++|.++++.|.+. +......|...+..+.+.++-+.|..+++++++.-.. -....
T Consensus      1526 yc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~ 1602 (1710)
T KOG1070|consen 1526 YC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEF 1602 (1710)
T ss_pred             hc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHH
Confidence            62  23466889999999999999999999999986 3467788999999999999999999999999875111 13445


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCc
Q 012126          379 SHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDT  446 (470)
Q Consensus       379 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  446 (470)
                      ..-.+..-.+.|+.+.+..+|+..+.... .-...|+.+++.-.++|+.+.+..+|+.+...++.|-.
T Consensus      1603 IskfAqLEFk~GDaeRGRtlfEgll~ayP-KRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kk 1669 (1710)
T KOG1070|consen 1603 ISKFAQLEFKYGDAERGRTLFEGLLSAYP-KRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKK 1669 (1710)
T ss_pred             HHHHHHHHhhcCCchhhHHHHHHHHhhCc-cchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhH
Confidence            66667777899999999999999988643 36789999999999999999999999999998887643

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.73  E-value=0.00012  Score=77.71  Aligned_cols=305  Identities=16%  Similarity=0.100  Sum_probs=194.8

Q ss_pred             HHHHHccCCchHHHHHHHHHhhCCC------CCC--HHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCH---HHHHH
Q 012126          102 ILKLGRAKYFSLIDDILITLKSEHY------PVT--PSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLP---KQLNR  170 (470)
Q Consensus       102 l~~~~~~~~~~~a~~~~~~~~~~~~------~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~  170 (470)
                      ...+...++++++..++......--      ++.  ......+...+...|++++|...+++........+.   .....
T Consensus       416 a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~  495 (903)
T PRK04841        416 AWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATS  495 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHH
Confidence            3445667899999988887654310      111  122233445567899999999999987763111121   12223


Q ss_pred             HHHHHHhcCCChhhHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC----CCC--C-CHHH
Q 012126          171 ILELLVTHRNYLRPAFDLFKSAHKH----GVL-PNTKSYNIMMRAFCFNGDISIAYTLFNKMFER----GVM--P-DVES  238 (470)
Q Consensus       171 ll~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~--p-~~~~  238 (470)
                      .+.......|++++|...+++....    |.. ....++..+...+...|+++.|...+++..+.    +..  + ....
T Consensus       496 ~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  575 (903)
T PRK04841        496 VLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFL  575 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHH
Confidence            3444455678899999999888742    111 11234556677888999999999998876542    211  1 2334


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCC--CCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CCHHHH----
Q 012126          239 YRILMQGLCRKSQVNRAVDLLEDMLNKG--FVP--DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCN-PDIVHY----  309 (470)
Q Consensus       239 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~----  309 (470)
                      +..+...+...|++++|...+.+.....  ..+  ....+..+...+...|+.++|.+.+++....... .....+    
T Consensus       576 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~  655 (903)
T PRK04841        576 LRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANA  655 (903)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHH
Confidence            4455667778899999999998876531  111  2334445666778899999999999887542111 011111    


Q ss_pred             -HHHHHHHHhcCCHhHHHHHHHhchhCCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCC-HHHHH
Q 012126          310 -NTVVLGFCREGRAIDACKVLEDMPSNGCLPNL---VSYRTLVGGLCDQGMFDVAKKYMQLMISK----GFSPH-FSVSH  380 (470)
Q Consensus       310 -~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~  380 (470)
                       ...+..+...|+.+.|..++............   ..+..+..++...|+.++|...+++....    |...+ ..+..
T Consensus       656 ~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~  735 (903)
T PRK04841        656 DKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLI  735 (903)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHH
Confidence             11224455689999999998776543211111   12345667788999999999999988753    32222 23556


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCC
Q 012126          381 ALIKGFCNVGKVDEACGVLEELLKAG  406 (470)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~~~~~~  406 (470)
                      .+..++.+.|+.++|...+.+..+..
T Consensus       736 ~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        736 LLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            66788899999999999999988753

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.72  E-value=8.7e-05  Score=64.76  Aligned_cols=298  Identities=9%  Similarity=0.012  Sum_probs=212.7

Q ss_pred             ChHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHH-HHHHHHH
Q 012126           61 SPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSL-FTYLIKI  139 (470)
Q Consensus        61 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~  139 (470)
                      .+..++..+...|.+..|+.-|..+...+  +.+-.++-.-...|...|+-..|..=+....+..  |+-.. -..-...
T Consensus        40 khlElGk~lla~~Q~sDALt~yHaAve~d--p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelK--pDF~~ARiQRg~v  115 (504)
T KOG0624|consen   40 KHLELGKELLARGQLSDALTHYHAAVEGD--PNNYQAIFRRATVYLAMGKSKAALQDLSRVLELK--PDFMAARIQRGVV  115 (504)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHcCC--chhHHHHHHHHHHHhhhcCCccchhhHHHHHhcC--ccHHHHHHHhchh
Confidence            34566777888999999999999887543  2233344444566788888888888888777653  44322 2234456


Q ss_pred             HHHcCCchhHHHHHHHHHhCCCccCHH--------------HHH--HHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHH
Q 012126          140 YAESNLPDRALKTFRSMLEFNCKPLPK--------------QLN--RILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKS  203 (470)
Q Consensus       140 ~~~~g~~~~A~~~~~~~~~~~~~p~~~--------------~~~--~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  203 (470)
                      +.+.|.+++|..=|+..++.+  |+..              .++  ..+..++ ..|+...|+.....+++..+. |...
T Consensus       116 llK~Gele~A~~DF~~vl~~~--~s~~~~~eaqskl~~~~e~~~l~~ql~s~~-~~GD~~~ai~~i~~llEi~~W-da~l  191 (504)
T KOG0624|consen  116 LLKQGELEQAEADFDQVLQHE--PSNGLVLEAQSKLALIQEHWVLVQQLKSAS-GSGDCQNAIEMITHLLEIQPW-DASL  191 (504)
T ss_pred             hhhcccHHHHHHHHHHHHhcC--CCcchhHHHHHHHHhHHHHHHHHHHHHHHh-cCCchhhHHHHHHHHHhcCcc-hhHH
Confidence            789999999999999998754  3211              111  1122222 567799999999999987653 8888


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhh----HHHH--
Q 012126          204 YNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLS----YTTL--  277 (470)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~l--  277 (470)
                      +..-..+|...|++..|+.=++...+..-. +..++--+-..+...|+.+.++...++.++.+  ||...    |..|  
T Consensus       192 ~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKld--pdHK~Cf~~YKklkK  268 (504)
T KOG0624|consen  192 RQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKLD--PDHKLCFPFYKKLKK  268 (504)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHccC--cchhhHHHHHHHHHH
Confidence            888899999999999999887776655433 66677778888899999999999999998764  44322    2111  


Q ss_pred             -------HHHHHhcCCHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCC-HHHHHH
Q 012126          278 -------LNSLCRKKKLREAYKLLCRMKVKGCNPDI---VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN-LVSYRT  346 (470)
Q Consensus       278 -------l~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~  346 (470)
                             +......+++.++.+..+...+.......   ..+..+..++...|++.+|++.-.+..+.  .|| +.++.-
T Consensus       269 v~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l~d  346 (504)
T KOG0624|consen  269 VVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDVQVLCD  346 (504)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHHHHHHH
Confidence                   12234467777788777777766322112   23455667788889999999999998874  455 778888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCC
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMISKG  371 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~~~  371 (470)
                      -..+|.-..+++.|+.=|+...+.+
T Consensus       347 RAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  347 RAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            8889998999999999999988753

>PLN02789 farnesyltranstransferase

Probab=98.72  E-value=3.2e-05  Score=69.91  Aligned_cols=142  Identities=7%  Similarity=0.005  Sum_probs=77.4

Q ss_pred             HHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 012126          171 ILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNG-DISIAYTLFNKMFERGVMPDVESYRILMQGLCRK  249 (470)
Q Consensus       171 ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  249 (470)
                      .+.++....+..++|+.+..++++.... +..+|+.-..++...| ++++++..++++.+.+.+ +..+|+.-...+.+.
T Consensus        42 ~~ra~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l  119 (320)
T PLN02789         42 YFRAVYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKL  119 (320)
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHc
Confidence            3444444555566666666666665432 4445555545555555 456666666666665444 444555444444444


Q ss_pred             CCh--HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012126          250 SQV--NRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGF  316 (470)
Q Consensus       250 ~~~--~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  316 (470)
                      |..  ++++.+++++.+...+ |..+|+...-++...|+++++++.++++++.+.. +...|+.....+
T Consensus       120 ~~~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl  186 (320)
T PLN02789        120 GPDAANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVI  186 (320)
T ss_pred             CchhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHH
Confidence            442  4556666666655544 5566666666666666666666666666655322 344444444333

>PLN02789 farnesyltranstransferase

Probab=98.72  E-value=1.5e-05  Score=72.07  Aligned_cols=147  Identities=8%  Similarity=0.038  Sum_probs=69.9

Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc---CC----hHHH
Q 012126          183 RPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRK---SQ----VNRA  255 (470)
Q Consensus       183 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~---~~----~~~a  255 (470)
                      ++++.+++++.+...+ |..+|+...-++...|+++++++.++++++.++. +...|+.....+.+.   |.    .++.
T Consensus       125 ~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~e  202 (320)
T PLN02789        125 NKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSE  202 (320)
T ss_pred             HHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHH
Confidence            3444455455544332 4555555555555555555555555555555443 444444443333332   11    1344


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-----------
Q 012126          256 VDLLEDMLNKGFVPDTLSYTTLLNSLCR----KKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREG-----------  320 (470)
Q Consensus       256 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-----------  320 (470)
                      ++...+++...+. |...|+.+...+..    .+...+|.+.+.+....+ ..+......|+..|+...           
T Consensus       203 l~y~~~aI~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~~~~~~~~~~  280 (320)
T PLN02789        203 LKYTIDAILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQPTAEFRDTVD  280 (320)
T ss_pred             HHHHHHHHHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhccchhhhhhhh
Confidence            4444444444333 45555555555544    123344555555544432 223444555555554421           


Q ss_pred             -------CHhHHHHHHHhch
Q 012126          321 -------RAIDACKVLEDMP  333 (470)
Q Consensus       321 -------~~~~a~~~~~~m~  333 (470)
                             ..++|.+++..+.
T Consensus       281 ~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        281 TLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             ccccccccHHHHHHHHHHHH
Confidence                   2356777777773

>PF12854 PPR_1: PPR repeat

Probab=98.71  E-value=2.3e-08  Score=56.72  Aligned_cols=32  Identities=31%  Similarity=0.794  Sum_probs=19.4

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 012126          196 GVLPNTKSYNIMMRAFCFNGDISIAYTLFNKM  227 (470)
Q Consensus       196 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  227 (470)
                      |+.||..+|++||++||+.|++++|.++|++|
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            45566666666666666666666666666555

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

Probab=98.70  E-value=9.6e-05  Score=70.85  Aligned_cols=215  Identities=16%  Similarity=0.131  Sum_probs=157.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 012126          205 NIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRK  284 (470)
Q Consensus       205 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  284 (470)
                      ..+...+...|-...|..+|++.         ..|.-++.+|+..|+..+|..+..+..+.  +||...|..+.+.....
T Consensus       402 ~~laell~slGitksAl~I~Erl---------emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~  470 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERL---------EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDP  470 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhH---------HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccCh
Confidence            45567777888888888888765         34566778888888888888888777763  66888888888877777


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 012126          285 KKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYM  364 (470)
Q Consensus       285 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  364 (470)
                      .-+++|.++++.....       .-..+.....+.+++.++.+.|+.-.+.+ +....+|-.+..+..+.+++..|.+.|
T Consensus       471 s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF  542 (777)
T KOG1128|consen  471 SLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAF  542 (777)
T ss_pred             HHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHH
Confidence            7788888888775433       11112222334688888888888766542 234567777777777888888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          365 QLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       365 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      ....... +-+...||.+-.+|.+.|+-.+|...+++..+.+ .-+...|...+-...+-|.+++|++.+.++.+.
T Consensus       543 ~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  543 HRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             HHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            8877642 3345688888888888888888888888888876 346667777777778888888888888888654

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

Probab=98.66  E-value=2.4e-05  Score=78.91  Aligned_cols=240  Identities=13%  Similarity=0.137  Sum_probs=149.9

Q ss_pred             CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHH
Q 012126          127 PVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNI  206 (470)
Q Consensus       127 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  206 (470)
                      +.+...+..|+..|...+++++|.++.+...+  ..|+...+..++..++...+....+                ... .
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~--~~P~~i~~yy~~G~l~~q~~~~~~~----------------~lv-~   88 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLK--EHKKSISALYISGILSLSRRPLNDS----------------NLL-N   88 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--hCCcceehHHHHHHHHHhhcchhhh----------------hhh-h
Confidence            34566777788888888888888888886666  3466665555555554444432211                111 5


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC
Q 012126          207 MMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKK  286 (470)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  286 (470)
                      ++.......++..+..+...|.+.+-  +...+..+..+|.+.|+.+++..+|+++++.... |..+.|.+...|+.. +
T Consensus        89 ~l~~~~~~~~~~~ve~~~~~i~~~~~--~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-d  164 (906)
T PRK14720         89 LIDSFSQNLKWAIVEHICDKILLYGE--NKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-D  164 (906)
T ss_pred             hhhhcccccchhHHHHHHHHHHhhhh--hhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-h
Confidence            55555566666566666666666532  4557888999999999999999999999998755 888999999999988 9


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 012126          287 LREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQL  366 (470)
Q Consensus       287 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  366 (470)
                      +++|..++.+....               |...+++..+.++|.++.+..  |+...               .-..+.+.
T Consensus       165 L~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~--~~d~d---------------~f~~i~~k  212 (906)
T PRK14720        165 KEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYN--SDDFD---------------FFLRIERK  212 (906)
T ss_pred             HHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcC--cccch---------------HHHHHHHH
Confidence            99999988887654               555667777777777777642  22211               11112222


Q ss_pred             HHHC-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          367 MISK-GFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQIC  422 (470)
Q Consensus       367 ~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  422 (470)
                      +... |..--..++-.+-..|-..++++++..+++..++.... |.....-++.+|.
T Consensus       213 i~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        213 VLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            2211 11222334444455555555666666666666554322 3344444454444

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.64  E-value=0.00014  Score=72.22  Aligned_cols=250  Identities=14%  Similarity=0.131  Sum_probs=126.6

Q ss_pred             HHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChh
Q 012126          139 IYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDIS  218 (470)
Q Consensus       139 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  218 (470)
                      .....+-+++|..+|++.-     .+....+.++...    +.++.|.+.-++..      ....|..+.++-...|.+.
T Consensus      1057 iai~~~LyEEAF~ifkkf~-----~n~~A~~VLie~i----~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~ 1121 (1666)
T KOG0985|consen 1057 IAIENQLYEEAFAIFKKFD-----MNVSAIQVLIENI----GSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVK 1121 (1666)
T ss_pred             HHhhhhHHHHHHHHHHHhc-----ccHHHHHHHHHHh----hhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchH
Confidence            3344455566666665432     1233333333322    23444444443332      3456777777777777777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012126          219 IAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMK  298 (470)
Q Consensus       219 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  298 (470)
                      +|++-|-+.  .    |...|..++....+.|.+++-.+++....+..-.|.  .=+.||-+|++.+++.+.++++.   
T Consensus      1122 dAieSyika--d----Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~--id~eLi~AyAkt~rl~elE~fi~--- 1190 (1666)
T KOG0985|consen 1122 DAIESYIKA--D----DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY--IDSELIFAYAKTNRLTELEEFIA--- 1190 (1666)
T ss_pred             HHHHHHHhc--C----CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc--chHHHHHHHHHhchHHHHHHHhc---
Confidence            776655322  1    556677777777777777777776665555543333  33456677777776665444331   


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 012126          299 VKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSV  378 (470)
Q Consensus       299 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  378 (470)
                          .|+......+.+-|...|.++.|.-+|...         ..|..|...+...|++..|...-++.      .+..+
T Consensus      1191 ----gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~aRKA------ns~kt 1251 (1666)
T KOG0985|consen 1191 ----GPNVANIQQVGDRCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDAARKA------NSTKT 1251 (1666)
T ss_pred             ----CCCchhHHHHhHHHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHHhhhc------cchhH
Confidence                245555555555555666666555555432         23444555555555555554433322      12344


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Q 012126          379 SHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       379 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  438 (470)
                      |--+-.+|...+.+.-|     +|-..++.....-..-|+.-|...|-+++.+.+++..+
T Consensus      1252 WK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~L 1306 (1666)
T KOG0985|consen 1252 WKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGL 1306 (1666)
T ss_pred             HHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhh
Confidence            44444444444333222     22222233334444455555555555555555554443

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

Probab=98.64  E-value=4.7e-05  Score=64.09  Aligned_cols=247  Identities=13%  Similarity=0.109  Sum_probs=123.1

Q ss_pred             HHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChh-
Q 012126          105 LGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLR-  183 (470)
Q Consensus       105 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~-  183 (470)
                      +.-.|+|..++..-.......  .++..-..+-++|...|++.....   ++.... .|.... -.++..+....+..+ 
T Consensus        18 ~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~~---eI~~~~-~~~lqA-vr~~a~~~~~e~~~~~   90 (299)
T KOG3081|consen   18 YFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVIS---EIKEGK-ATPLQA-VRLLAEYLELESNKKS   90 (299)
T ss_pred             HHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHccccccccc---cccccc-CChHHH-HHHHHHHhhCcchhHH
Confidence            344455555554444333221  234444445566666665543322   222211 111111 112222222222222 


Q ss_pred             hHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 012126          184 PAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDML  263 (470)
Q Consensus       184 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  263 (470)
                      ...++.+.+.......+......-...|++.|++++|++......      +......=...+.+..+.+-|.+.+++|.
T Consensus        91 ~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq  164 (299)
T KOG3081|consen   91 ILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQ  164 (299)
T ss_pred             HHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            223333334333333233333344456777777777777765511      33344344455566677777777777776


Q ss_pred             hCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCC
Q 012126          264 NKGFVPDTLSYTTLLNSLCR----KKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLP  339 (470)
Q Consensus       264 ~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  339 (470)
                      +..   +..+.+.|..++.+    .+.+..|.-+|++|.++ .+|+..+.+....++...|++++|..++++...+... 
T Consensus       165 ~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-  239 (299)
T KOG3081|consen  165 QID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-  239 (299)
T ss_pred             ccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-
Confidence            642   44555555555543    34566777777777654 3566667777777777777777777777776665322 


Q ss_pred             CHHHHHHHHHHHHhcCCh-HHHHHHHHHHHH
Q 012126          340 NLVSYRTLVGGLCDQGMF-DVAKKYMQLMIS  369 (470)
Q Consensus       340 ~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~  369 (470)
                      +..+...++-.-...|.. +.-.+.+..+..
T Consensus       240 dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  240 DPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             CHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            344444444333333333 333444444444

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.63  E-value=0.00043  Score=66.94  Aligned_cols=126  Identities=15%  Similarity=0.032  Sum_probs=99.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCC-HHHHHHHHHHHHhc
Q 012126          276 TLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN-LVSYRTLVGGLCDQ  354 (470)
Q Consensus       276 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~  354 (470)
                      .....+.+.+..++|...+.+..+. ..-....|......+...|..++|.+.|......  .|+ .....++...+.+.
T Consensus       655 laa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~l--dP~hv~s~~Ala~~lle~  731 (799)
T KOG4162|consen  655 LAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALAL--DPDHVPSMTALAELLLEL  731 (799)
T ss_pred             HHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhc--CCCCcHHHHHHHHHHHHh
Confidence            3445566667777776666665544 2334566777777788899999999999988774  454 56788899999999


Q ss_pred             CChHHHHH--HHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          355 GMFDVAKK--YMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       355 g~~~~a~~--~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      |+..-|..  ++.++.+.+ +.+...|..+...+.+.|+.++|.+.|+...+.
T Consensus       732 G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  732 GSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             CCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            99888888  999999976 557889999999999999999999999988764

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.60  E-value=9.8e-06  Score=70.85  Aligned_cols=186  Identities=11%  Similarity=0.005  Sum_probs=125.0

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HHHH
Q 012126          235 DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV-P-DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDI--VHYN  310 (470)
Q Consensus       235 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~  310 (470)
                      ....+..+...+...|++++|...|+++...... | ...++..+..++.+.|++++|...++++.+..-....  .++.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            5667777888888999999999999998876432 1 1245677788888999999999999998876211111  1344


Q ss_pred             HHHHHHHhc--------CCHhHHHHHHHhchhCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 012126          311 TVVLGFCRE--------GRAIDACKVLEDMPSNGCLPNLV-SYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHA  381 (470)
Q Consensus       311 ~li~~~~~~--------~~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  381 (470)
                      .+..++.+.        |++++|.+.++.+.+.  .|+.. .+..+... ..   ..      ...        ......
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~-~~---~~------~~~--------~~~~~~  171 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRM-DY---LR------NRL--------AGKELY  171 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHH-HH---HH------HHH--------HHHHHH
Confidence            445555544        6778888888887765  24332 22211111 00   00      000        011124


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          382 LIKGFCNVGKVDEACGVLEELLKAGE--APHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       382 li~~~~~~g~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      +...|.+.|++++|...+++.++...  +.....+..+..++.+.|++++|..+++.+...
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            55678899999999999999987531  123568889999999999999999999888754

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).

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.60  E-value=1.2e-05  Score=70.28  Aligned_cols=187  Identities=11%  Similarity=0.015  Sum_probs=122.1

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCH--hhH
Q 012126          199 PNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVM-P-DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDT--LSY  274 (470)
Q Consensus       199 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~  274 (470)
                      .....+..+...+...|+++.|...|+++...... | ...++..+..++...|++++|+..++++.+.......  .++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            35667777778888889999999888888775432 1 1245667778888889999999999888876443111  134


Q ss_pred             HHHHHHHHhc--------CCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHH
Q 012126          275 TTLLNSLCRK--------KKLREAYKLLCRMKVKGCNPDI-VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYR  345 (470)
Q Consensus       275 ~~ll~~~~~~--------~~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  345 (470)
                      ..+..++...        |+.++|.+.++.+...  .|+. ..+..+... ..   .....              .....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~-~~---~~~~~--------------~~~~~  170 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRM-DY---LRNRL--------------AGKEL  170 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHH-HH---HHHHH--------------HHHHH
Confidence            4444455543        6788899999888776  3443 222222111 00   00000              00112


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          346 TLVGGLCDQGMFDVAKKYMQLMISKGF--SPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       346 ~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      .+...+.+.|++++|...++...+..-  +.....+..+..++.+.|++++|..+++.+...
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            455667888999999999988887521  223567788888899999999999988887654

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).

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.60  E-value=5.1e-05  Score=72.59  Aligned_cols=138  Identities=12%  Similarity=0.151  Sum_probs=84.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC
Q 012126          207 MMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKK  286 (470)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  286 (470)
                      .+.+....+++.+|+.+++.+.+...  -.--|..+...|...|+++.|.++|-+.         ..++-.|.+|.+.|+
T Consensus       738 aieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhcccc
Confidence            34455566777777777777776643  2334566667777778888887777542         134556777888888


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 012126          287 LREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQL  366 (470)
Q Consensus       287 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  366 (470)
                      ++.|.++-++....  ......|-+-..-+-+.|++.+|.++|-.+.+    |+.     .|..|-+.|..+..+++.++
T Consensus       807 w~da~kla~e~~~~--e~t~~~yiakaedldehgkf~eaeqlyiti~~----p~~-----aiqmydk~~~~ddmirlv~k  875 (1636)
T KOG3616|consen  807 WEDAFKLAEECHGP--EATISLYIAKAEDLDEHGKFAEAEQLYITIGE----PDK-----AIQMYDKHGLDDDMIRLVEK  875 (1636)
T ss_pred             HHHHHHHHHHhcCc--hhHHHHHHHhHHhHHhhcchhhhhheeEEccC----chH-----HHHHHHhhCcchHHHHHHHH
Confidence            88777776655422  33445555555556667777777766655432    332     35556666666655555543

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

Probab=98.57  E-value=0.00068  Score=63.67  Aligned_cols=163  Identities=18%  Similarity=0.116  Sum_probs=105.9

Q ss_pred             HhhHHHHHHHHHhc--CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHH--------hchhCCCCCC
Q 012126          271 TLSYTTLLNSLCRK--KKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLE--------DMPSNGCLPN  340 (470)
Q Consensus       271 ~~~~~~ll~~~~~~--~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~--------~m~~~~~~p~  340 (470)
                      ...+.+++..+.+.  .....+.+++...-+..-.-...+.-.++......|+++.|++++.        .+.+.+..|-
T Consensus       339 ~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~  418 (652)
T KOG2376|consen  339 ESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPG  418 (652)
T ss_pred             hHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChh
Confidence            34455555544332  2466777777777665322234556667778889999999999999        5555555554


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCCHH----HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 012126          341 LVSYRTLVGGLCDQGMFDVAKKYMQLMISK--GFSPHFS----VSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTW  414 (470)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~----~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  414 (470)
                        +...++..+.+.++.+.|..++.+.++.  .-.+...    ++.-....-.+.|+.++|..+++++.+.+ .+|..+.
T Consensus       419 --~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l  495 (652)
T KOG2376|consen  419 --TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLL  495 (652)
T ss_pred             --HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHH
Confidence              4455666677777777777777776642  1112222    23333333456799999999999998854 4688899


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHH
Q 012126          415 VMIVPQICAGEEMEKLGEVLNEI  437 (470)
Q Consensus       415 ~~l~~~~~~~g~~~~a~~~~~~m  437 (470)
                      ..++.+|++. +.+.|..+-+.+
T Consensus       496 ~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  496 VQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             HHHHHHHHhc-CHHHHHHHhhcC
Confidence            9999988876 456666555443

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

Probab=98.52  E-value=3.6e-05  Score=64.69  Aligned_cols=123  Identities=11%  Similarity=0.175  Sum_probs=93.9

Q ss_pred             CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HHcCC--hHHHH
Q 012126          180 NYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGL-CRKSQ--VNRAV  256 (470)
Q Consensus       180 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~-~~~~~--~~~a~  256 (470)
                      ++.+++...+++..+... .|...|..+...|...|++++|...|++..+.... +...+..+..++ ...|+  .++|.
T Consensus        53 ~~~~~~i~~l~~~L~~~P-~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~  130 (198)
T PRK10370         53 QTPEAQLQALQDKIRANP-QNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTR  130 (198)
T ss_pred             hhHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHH
Confidence            345666667777666554 37888888888888999999999999888887644 677777777764 56676  48888


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 012126          257 DLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDI  306 (470)
Q Consensus       257 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~  306 (470)
                      +++++..+.+.. +..++..+...+.+.|++++|...|+++.+.. +|+.
T Consensus       131 ~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~  178 (198)
T PRK10370        131 EMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRV  178 (198)
T ss_pred             HHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCc
Confidence            889888887665 67778888888888888999988888887763 3444

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.52  E-value=3.7e-05  Score=76.72  Aligned_cols=148  Identities=16%  Similarity=0.126  Sum_probs=110.1

Q ss_pred             CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHH
Q 012126          126 YPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYN  205 (470)
Q Consensus       126 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  205 (470)
                      ++.++..+..|..+....|..++|+.+++...+  ..|+.......+.......+.+++|....++....... +....+
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~  158 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREIL  158 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHH
Confidence            456677888888888888888888888888877  56777777766666666777788888888888877643 666777


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 012126          206 IMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLL  278 (470)
Q Consensus       206 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  278 (470)
                      .+..++.+.|++++|..+|++....+.. +..++..+..++...|+.++|...|++..+.. .+....|+..+
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~p~-~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~  229 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQHPE-FENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH
Confidence            7778888888888888888888874432 57778888888888888888888888877653 22444544433

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

Probab=98.51  E-value=2.8e-05  Score=65.34  Aligned_cols=119  Identities=8%  Similarity=0.004  Sum_probs=69.9

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHH-HhcCC--hHHH
Q 012126          284 KKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGL-CDQGM--FDVA  360 (470)
Q Consensus       284 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~-~~~g~--~~~a  360 (470)
                      .++.+++...++...+.. +.+...|..+...|...|++++|...|++..+.. +-+...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            455556665565555542 3455666666666666666666666666666543 12445555555543 45455  3666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          361 KKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       361 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      .+++++..+.+ +-+...+..+...+...|++++|...|+++++.
T Consensus       130 ~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            66666666653 234556666666666666666666666666654

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

Probab=98.50  E-value=3.3e-05  Score=64.95  Aligned_cols=152  Identities=14%  Similarity=0.066  Sum_probs=97.2

Q ss_pred             cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVD  257 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  257 (470)
                      ..|+-+....+..+..... .-|....+..++...+.|++..|...|++..... ++|..+|+.+.-+|.+.|++++|..
T Consensus        78 ~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr~~~Ar~  155 (257)
T COG5010          78 LRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLGRFDEARR  155 (257)
T ss_pred             hcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHccChhHHHH
Confidence            3333444444444433221 1255556667777777777777777777776553 4477777777777777777777777


Q ss_pred             HHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhch
Q 012126          258 LLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMP  333 (470)
Q Consensus       258 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  333 (470)
                      -|.+..+.... +....+.+.-.|.-.|+.+.|..++......+ .-|..+-..+.......|++++|.++...-.
T Consensus       156 ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~~~e~  229 (257)
T COG5010         156 AYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIAVQEL  229 (257)
T ss_pred             HHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhccccc
Confidence            77777765433 45566666666777777777777777766653 2255555666666777777777776665433

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

Probab=98.48  E-value=9.3e-05  Score=62.36  Aligned_cols=171  Identities=12%  Similarity=0.082  Sum_probs=89.0

Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 012126          223 LFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGC  302 (470)
Q Consensus       223 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  302 (470)
                      +.+.+.......+......-...|+..|++++|++.....    .  +......=+..+.+..+.+-|...+++|.+-. 
T Consensus        95 l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~----~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id-  167 (299)
T KOG3081|consen   95 LYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG----E--NLEAAALNVQILLKMHRFDLAEKELKKMQQID-  167 (299)
T ss_pred             HHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc----c--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-
Confidence            3444444433323333333344566666777776665541    1  22222223344555666666777676666542 


Q ss_pred             CCCHHHHHHHHHHHHh----cCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 012126          303 NPDIVHYNTVVLGFCR----EGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSV  378 (470)
Q Consensus       303 ~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  378 (470)
                        +..+.+.|..++.+    .+.+.+|.-+|++|.++ ..|+..+.+....++...|++++|..++++...+.. .++.+
T Consensus       168 --ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~-~dpet  243 (299)
T KOG3081|consen  168 --EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDA-KDPET  243 (299)
T ss_pred             --hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccC-CCHHH
Confidence              44555555555443    34466666677766654 456666666666666666777777777766666532 23334


Q ss_pred             HHHHHHHHHccCCH-HHHHHHHHHHHH
Q 012126          379 SHALIKGFCNVGKV-DEACGVLEELLK  404 (470)
Q Consensus       379 ~~~li~~~~~~g~~-~~a~~~~~~~~~  404 (470)
                      ...++.+-...|.. +-..+.+.++..
T Consensus       244 L~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  244 LANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            43333333333332 333444444444

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

Probab=98.43  E-value=0.00012  Score=61.70  Aligned_cols=123  Identities=14%  Similarity=0.116  Sum_probs=55.3

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 012126          309 YNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCN  388 (470)
Q Consensus       309 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  388 (470)
                      .+..+....+.|++.+|...+.+.... -++|...|+.+.-+|.+.|+++.|..-|.+..+.- .-+...++.+...|.-
T Consensus       103 l~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L  180 (257)
T COG5010         103 LAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLL  180 (257)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHH
Confidence            333444444455555555555444432 13344445544445555555555555554444431 1223344444444444


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHH
Q 012126          389 VGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVL  434 (470)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  434 (470)
                      .|+.+.|..++......+.. |..+-..+..+....|++++|..+.
T Consensus       181 ~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         181 RGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhc
Confidence            45555555555444443211 3334444444444455555444443

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

Probab=98.42  E-value=0.00065  Score=62.48  Aligned_cols=182  Identities=16%  Similarity=0.103  Sum_probs=109.8

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 012126          199 PNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLL  278 (470)
Q Consensus       199 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  278 (470)
                      |+...+...+.+......-..+..++.+..+.  .-...-|.. .-.+...|++++|+..+..+...-+. |........
T Consensus       272 ~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~-A~~~~~~~~~d~A~~~l~~L~~~~P~-N~~~~~~~~  347 (484)
T COG4783         272 PDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGR-ALQTYLAGQYDEALKLLQPLIAAQPD-NPYYLELAG  347 (484)
T ss_pred             ccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHH-HHHHHHhcccchHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            34445555555444333333333333322221  112223332 33345667777777777777765433 566666667


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCCh
Q 012126          279 NSLCRKKKLREAYKLLCRMKVKGCNPD-IVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMF  357 (470)
Q Consensus       279 ~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  357 (470)
                      +.+.+.++.++|.+.++.+...  .|+ ....-.+.++|.+.|++.+|+.+++..... .+-|...|..|.++|...|+.
T Consensus       348 ~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~  424 (484)
T COG4783         348 DILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNR  424 (484)
T ss_pred             HHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCch
Confidence            7777777788887777777766  444 445555667777777777777777776654 344677777777777777776


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          358 DVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       358 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      .++.....+                  .|...|+++.|...+....+.
T Consensus       425 ~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         425 AEALLARAE------------------GYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHHh
Confidence            666554433                  345567777777777666554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.41  E-value=3.9e-05  Score=76.55  Aligned_cols=147  Identities=7%  Similarity=-0.023  Sum_probs=127.6

Q ss_pred             CCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHH
Q 012126           90 NFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLN  169 (470)
Q Consensus        90 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  169 (470)
                      .|+.+...+..|.....+.|++++|..+++.+.+.. |.+......+...+.+.+++++|+..+++...  ..|+.....
T Consensus        81 ~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~  157 (694)
T PRK15179         81 RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREI  157 (694)
T ss_pred             hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHH
Confidence            356778999999999999999999999999999886 77788899999999999999999999999998  469999999


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHH
Q 012126          170 RILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRI  241 (470)
Q Consensus       170 ~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  241 (470)
                      .++..+....|.+++|..+|+++...+. -+..++..+...+.+.|+.++|...|++..+.. .+....|+.
T Consensus       158 ~~~a~~l~~~g~~~~A~~~y~~~~~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~  227 (694)
T PRK15179        158 LLEAKSWDEIGQSEQADACFERLSRQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTR  227 (694)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHH
Confidence            9999999999999999999999998543 258899999999999999999999999987752 223344443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.39  E-value=0.00021  Score=70.95  Aligned_cols=131  Identities=17%  Similarity=0.020  Sum_probs=85.8

Q ss_pred             ChHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012126           61 SPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIY  140 (470)
Q Consensus        61 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  140 (470)
                      +.....+.+....+++.|..+.-...+......-...|....-.+.+.+++..+..-|+...+.. |.|...|..+..+|
T Consensus       528 aaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY  606 (1238)
T KOG1127|consen  528 AAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAY  606 (1238)
T ss_pred             hHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHH
Confidence            33455566677777777777643333222111112223334445666777778877777777665 56778888899999


Q ss_pred             HHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHH
Q 012126          141 AESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHK  194 (470)
Q Consensus       141 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~  194 (470)
                      ..+|.+..|+++|.+...  +.|+...-.......-...|.+.++...+.....
T Consensus       607 ~~sGry~~AlKvF~kAs~--LrP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  607 PESGRYSHALKVFTKASL--LRPLSKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             HhcCceehHHHhhhhhHh--cCcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            999999999999988877  4566655555555555566778888888877653

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.39  E-value=3.9e-05  Score=60.91  Aligned_cols=95  Identities=12%  Similarity=-0.122  Sum_probs=64.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 012126          204 YNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR  283 (470)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  283 (470)
                      +..+...+...|++++|...|+......+. +...|..+..++...|++++|+..|+.....+.. +..++..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~-~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS-HPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHH
Confidence            444566666777777777777777665433 6666677777777777777777777777765443 56666667777777


Q ss_pred             cCCHHHHHHHHHHHHHc
Q 012126          284 KKKLREAYKLLCRMKVK  300 (470)
Q Consensus       284 ~~~~~~a~~~~~~m~~~  300 (470)
                      .|+.++|...|+...+.
T Consensus       105 ~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        105 MGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            77777777777776665

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

Probab=98.39  E-value=3e-05  Score=74.14  Aligned_cols=221  Identities=15%  Similarity=0.130  Sum_probs=165.0

Q ss_pred             CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHH
Q 012126          126 YPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYN  205 (470)
Q Consensus       126 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  205 (470)
                      +||--..-..+.+.+.+.|-...|+.+|+++..         |..++..+. ..|+..+|..+..+..+.  +||...|.
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erlem---------w~~vi~CY~-~lg~~~kaeei~~q~lek--~~d~~lyc  461 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERLEM---------WDPVILCYL-LLGQHGKAEEINRQELEK--DPDPRLYC  461 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhHHH---------HHHHHHHHH-HhcccchHHHHHHHHhcC--CCcchhHH
Confidence            344555566788889999999999999998755         444444444 444678888888887773  47888888


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 012126          206 IMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKK  285 (470)
Q Consensus       206 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  285 (470)
                      .+.+.....--+++|.++.+..-.+       .-..+.....+.++++++.+.|+.-.+.+.- -..+|-.+-.+..+.+
T Consensus       462 ~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~npl-q~~~wf~~G~~ALqle  533 (777)
T KOG1128|consen  462 LLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPL-QLGTWFGLGCAALQLE  533 (777)
T ss_pred             HhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCcc-chhHHHhccHHHHHHh
Confidence            8888877777788888888765433       1112222233478899999999887776533 5567777788888899


Q ss_pred             CHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 012126          286 KLREAYKLLCRMKVKGCNP-DIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYM  364 (470)
Q Consensus       286 ~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  364 (470)
                      +++.|.+.|......  .| +...||.+-.+|.+.++-.+|...+.+..+.+. -+...|...+-...+.|.+++|.+.+
T Consensus       534 k~q~av~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~-~~w~iWENymlvsvdvge~eda~~A~  610 (777)
T KOG1128|consen  534 KEQAAVKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNY-QHWQIWENYMLVSVDVGEFEDAIKAY  610 (777)
T ss_pred             hhHHHHHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCC-CCCeeeechhhhhhhcccHHHHHHHH
Confidence            999999999988765  34 467899999999999999999999999988763 34455555666678889999999999


Q ss_pred             HHHHH
Q 012126          365 QLMIS  369 (470)
Q Consensus       365 ~~~~~  369 (470)
                      ..+.+
T Consensus       611 ~rll~  615 (777)
T KOG1128|consen  611 HRLLD  615 (777)
T ss_pred             HHHHH
Confidence            88775

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.39  E-value=0.00075  Score=65.82  Aligned_cols=60  Identities=10%  Similarity=0.065  Sum_probs=41.7

Q ss_pred             CHHHHHHHHHHHHHCCCC----CCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCceeee
Q 012126          391 KVDEACGVLEELLKAGEA----PHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVE  450 (470)
Q Consensus       391 ~~~~a~~~~~~~~~~~~~----p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  450 (470)
                      +..+.+.-...|.+.-+-    +-...|..||..+....++..|-+.+++|.++-...|..++-
T Consensus      1306 D~~~~i~qc~~lleep~ld~~Ir~~~~~a~lie~~v~~k~y~~AyRal~el~~k~p~~~~s~~v 1369 (1416)
T KOG3617|consen 1306 DAADGIRQCTTLLEEPILDDIIRCTRLFALLIEDHVSRKNYKPAYRALTELQKKVPNVDLSTFV 1369 (1416)
T ss_pred             hHHHHHHHHHHHhhCcCCCCcchhHHHHHHHHHHHHhhhhccHHHHHHHHHhhcCCccchhccc
Confidence            333334444445444332    334588999999999999999999999999876666655553

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.38  E-value=4.5e-05  Score=60.58  Aligned_cols=95  Identities=11%  Similarity=-0.054  Sum_probs=56.4

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 012126          309 YNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCN  388 (470)
Q Consensus       309 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  388 (470)
                      +......+.+.|++++|...|+...... +.+...|..+..++...|++++|...|+...+.. +.+...+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            3344555566666666666666665542 2245555666666666666666666666666542 3345566666666666


Q ss_pred             cCCHHHHHHHHHHHHHC
Q 012126          389 VGKVDEACGVLEELLKA  405 (470)
Q Consensus       389 ~g~~~~a~~~~~~~~~~  405 (470)
                      .|++++|...|+..++.
T Consensus       105 ~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        105 MGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66666666666666653

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.37  E-value=0.001  Score=66.38  Aligned_cols=326  Identities=15%  Similarity=0.200  Sum_probs=187.8

Q ss_pred             HHHHHHHHHHHccCCchHHHH-----------HHHHHhhCCCC--CCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCc
Q 012126           96 STYLILILKLGRAKYFSLIDD-----------ILITLKSEHYP--VTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCK  162 (470)
Q Consensus        96 ~~~~~ll~~~~~~~~~~~a~~-----------~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  162 (470)
                      ..|....+.+.+..+.+.-.+           +++.....+++  .+++.....+.++...+-+.+-++++++++-.+..
T Consensus       937 SlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~ 1016 (1666)
T KOG0985|consen  937 SLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSV 1016 (1666)
T ss_pred             hHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcc
Confidence            344445555555555433332           33444444332  35667777788888888888888888887642211


Q ss_pred             --cCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCC-----------------------CCHHHHHHHHHHHHhcCCh
Q 012126          163 --PLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVL-----------------------PNTKSYNIMMRAFCFNGDI  217 (470)
Q Consensus       163 --p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~-----------------------~~~~~~~~li~~~~~~g~~  217 (470)
                        -+...-|.++-...  +-+-..+.+..+++-..+..                       .+....+.|+.   ..+.+
T Consensus      1017 Fse~~nLQnLLiLtAi--kad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie---~i~~l 1091 (1666)
T KOG0985|consen 1017 FSENRNLQNLLILTAI--KADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIE---NIGSL 1091 (1666)
T ss_pred             cccchhhhhhHHHHHh--hcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHH---HhhhH
Confidence              11111222222221  11223344444444332211                       12223333332   12334


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 012126          218 SIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRM  297 (470)
Q Consensus       218 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m  297 (470)
                      +.|.+.-++..      ....|+.+..+-.+.|...+|++-|-+.      -|+..|..+++...+.|.+++-.+.+...
T Consensus      1092 dRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~Ma 1159 (1666)
T KOG0985|consen 1092 DRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMA 1159 (1666)
T ss_pred             HHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            44433332221      3466777777777777777777666432      15667777778888888888877777777


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH
Q 012126          298 KVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFS  377 (470)
Q Consensus       298 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  377 (470)
                      .+..-.|...  +.||-+|++.++..+..+++.       .||......+.+-|...|.++.|.-+|...         .
T Consensus      1160 Rkk~~E~~id--~eLi~AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v---------S 1221 (1666)
T KOG0985|consen 1160 RKKVREPYID--SELIFAYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNV---------S 1221 (1666)
T ss_pred             HHhhcCccch--HHHHHHHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHh---------h
Confidence            6664444433  467777777777776655542       366666677777777777777777666543         3


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHH----------HHHHHHHHccccCCce
Q 012126          378 VSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLG----------EVLNEIVKVEIKGDTR  447 (470)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~----------~~~~~m~~~~~~p~~~  447 (470)
                      -|..|...++..|++..|...-++.      -+..||..+--+|...+.+.-|-          +-++++.  +...|.-
T Consensus      1222 N~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EFrlAQiCGL~iivhadeLeeli--~~Yq~rG 1293 (1666)
T KOG0985|consen 1222 NFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFACVDKEEFRLAQICGLNIIVHADELEELI--EYYQDRG 1293 (1666)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHhchhhhhHHHhcCceEEEehHhHHHHH--HHHHhcC
Confidence            4666777777778887777665443      36778888888888877766553          1223333  4555666


Q ss_pred             eeecccchhhHhhHHhh
Q 012126          448 IVEAGIGLEDYLIGKTR  464 (470)
Q Consensus       448 ~~~~~~~~~~~~~~~~~  464 (470)
                      .++.+|.+.+.-.|-.+
T Consensus      1294 yFeElIsl~Ea~LGLER 1310 (1666)
T KOG0985|consen 1294 YFEELISLLEAGLGLER 1310 (1666)
T ss_pred             cHHHHHHHHHhhhchhH
Confidence            66777777666666554

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

Probab=98.36  E-value=0.0023  Score=59.62  Aligned_cols=184  Identities=11%  Similarity=0.080  Sum_probs=135.0

Q ss_pred             hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHhHHHHHHH
Q 012126          252 VNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNP-DIVHYNTVVLGFCREGRAIDACKVLE  330 (470)
Q Consensus       252 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~  330 (470)
                      .+.....++++...-..--..+|...++.-.+..-+..|..+|.+..+.+..+ ++.++++++..|| .++.+-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHH
Confidence            56666777776654333344678888999999999999999999999987777 7888999998776 578899999999


Q ss_pred             hchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHHCC--
Q 012126          331 DMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH--FSVSHALIKGFCNVGKVDEACGVLEELLKAG--  406 (470)
Q Consensus       331 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--  406 (470)
                      --.+. ..-+..--...+.-+...++-..+..+|++.+..++.++  ..+|..+++-=..-|++..+.++-+++...-  
T Consensus       426 LGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~  504 (656)
T KOG1914|consen  426 LGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPA  504 (656)
T ss_pred             HHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcch
Confidence            86554 222334445667777889999999999999999866655  4699999999999999999999988775431  


Q ss_pred             -CCCCHHHHHHHHHHHHcCCcHHHHHHHHHHH
Q 012126          407 -EAPHEDTWVMIVPQICAGEEMEKLGEVLNEI  437 (470)
Q Consensus       407 -~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m  437 (470)
                       ..+....-..+++-|.-.+.+..-..-++.+
T Consensus       505 ~qe~~~~~~~~~v~RY~~~d~~~c~~~elk~l  536 (656)
T KOG1914|consen  505 DQEYEGNETALFVDRYGILDLYPCSLDELKFL  536 (656)
T ss_pred             hhcCCCChHHHHHHHHhhcccccccHHHHHhh
Confidence             2223334455566666665554433333333

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.34  E-value=0.0012  Score=61.36  Aligned_cols=329  Identities=13%  Similarity=0.077  Sum_probs=206.0

Q ss_pred             HHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCH-HHHHHHHHHHHhcCCC
Q 012126          103 LKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLP-KQLNRILELLVTHRNY  181 (470)
Q Consensus       103 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~~~~  181 (470)
                      .+....|+++.|...|...+... |++...|..-..+|++.|++++|++=-.+-++  +.|+= ..|...-.++. ..|+
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~-~lg~   85 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALF-GLGD   85 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHH-hccc
Confidence            34667899999999999998887 66888899999999999999999887666665  44553 34444444443 6677


Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHH---HHHHHHHHHC---CCCCCHHHHHHHHHHHHHc------
Q 012126          182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIA---YTLFNKMFER---GVMPDVESYRILMQGLCRK------  249 (470)
Q Consensus       182 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a---~~~~~~m~~~---~~~p~~~~~~~ll~~~~~~------  249 (470)
                      +++|+.-|.+=++.... |...++.+..++.........   -.++..+...   ........|..++..+-+.      
T Consensus        86 ~~eA~~ay~~GL~~d~~-n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~  164 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKDPS-NKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKL  164 (539)
T ss_pred             HHHHHHHHHHHhhcCCc-hHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhc
Confidence            99999999998876543 667777777776211000000   0011111000   0000111222222221110      


Q ss_pred             -CChHHHHHHHHHHHh--------CC-------CCC----------------------CHhhHHHHHHHHHhcCCHHHHH
Q 012126          250 -SQVNRAVDLLEDMLN--------KG-------FVP----------------------DTLSYTTLLNSLCRKKKLREAY  291 (470)
Q Consensus       250 -~~~~~a~~~~~~~~~--------~~-------~~~----------------------~~~~~~~ll~~~~~~~~~~~a~  291 (470)
                       .+.+...+....+..        .|       ..|                      -..-...+.++..+..+++.|.
T Consensus       165 ~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~  244 (539)
T KOG0548|consen  165 YLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAI  244 (539)
T ss_pred             ccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHH
Confidence             001111111111110        00       011                      0122456788888899999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHH-------HHHHHHHhcCChHHHHHHH
Q 012126          292 KLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYR-------TLVGGLCDQGMFDVAKKYM  364 (470)
Q Consensus       292 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~-------~li~~~~~~g~~~~a~~~~  364 (470)
                      +-+....+..  -+..-++....+|...|.+.++...-....+.|-. ...-|+       .+..+|.+.++++.|...|
T Consensus       245 q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~  321 (539)
T KOG0548|consen  245 QHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYY  321 (539)
T ss_pred             HHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHH
Confidence            9999988774  35555666677889999888877777776665522 112222       2334566778889999988


Q ss_pred             HHHHHCCCCCCHHH-------------------------HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          365 QLMISKGFSPHFSV-------------------------SHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVP  419 (470)
Q Consensus       365 ~~~~~~~~~~~~~~-------------------------~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  419 (470)
                      .+.....-.|+...                         ...=...+.+.|++..|.+.|.++++.. +-|...|....-
T Consensus       322 ~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAa  400 (539)
T KOG0548|consen  322 QKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAA  400 (539)
T ss_pred             HHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHH
Confidence            88765433332111                         1112455678899999999999999987 347789999999


Q ss_pred             HHHcCCcHHHHHHHHHHHHHc
Q 012126          420 QICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       420 ~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      +|.+.|.+..|+.-.+..++.
T Consensus       401 c~~kL~~~~~aL~Da~~~ieL  421 (539)
T KOG0548|consen  401 CYLKLGEYPEALKDAKKCIEL  421 (539)
T ss_pred             HHHHHhhHHHHHHHHHHHHhc
Confidence            999999999999888777755

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.29  E-value=0.00041  Score=66.72  Aligned_cols=138  Identities=15%  Similarity=0.233  Sum_probs=96.4

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 012126          242 LMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGR  321 (470)
Q Consensus       242 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  321 (470)
                      .+.+......+.+|+.+++.+.+...  -..-|..+.+-|+..|+++.|.++|-+.-         .++-.|.+|.+.|+
T Consensus       738 aieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhcccc
Confidence            45566677889999999998887643  34567788899999999999999997643         24567889999999


Q ss_pred             HhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 012126          322 AIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEE  401 (470)
Q Consensus       322 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  401 (470)
                      +++|.++-.+...  .......|..-..-+-++|++.+|++++-.+-    .|+     .-|.+|-+.|..+..+++.++
T Consensus       807 w~da~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k  875 (1636)
T KOG3616|consen  807 WEDAFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEK  875 (1636)
T ss_pred             HHHHHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHH
Confidence            9999999877643  33455566666666677888877777664331    233     233445555555555555443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.28  E-value=0.00067  Score=67.55  Aligned_cols=185  Identities=14%  Similarity=0.032  Sum_probs=122.3

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHH
Q 012126           72 QSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALK  151 (470)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  151 (470)
                      ..+...|+..|=...+.+  +.-...|..|...|....+...|.+-|+...+.+ +.+........+.|+....++.|..
T Consensus       471 rK~~~~al~ali~alrld--~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~  547 (1238)
T KOG1127|consen  471 RKNSALALHALIRALRLD--VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFE  547 (1238)
T ss_pred             hhhHHHHHHHHHHHHhcc--cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHH
Confidence            344556666555555443  1234567777787877777888888888877665 4566778888888988888888888


Q ss_pred             HHHHHHhCCC-ccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 012126          152 TFRSMLEFNC-KPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFER  230 (470)
Q Consensus       152 ~~~~~~~~~~-~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  230 (470)
                      +.-..-+... ..-...|.. ...++-..+....+..-|+...+..+. |...|..++.+|.+.|.+..|.++|.+....
T Consensus       548 I~l~~~qka~a~~~k~nW~~-rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L  625 (1238)
T KOG1127|consen  548 ICLRAAQKAPAFACKENWVQ-RGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL  625 (1238)
T ss_pred             HHHHHhhhchHHHHHhhhhh-ccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc
Confidence            8433222110 001111222 233333555677788888888876654 8889999999999999999999999887765


Q ss_pred             CCCCCHHHHHH--HHHHHHHcCChHHHHHHHHHHHh
Q 012126          231 GVMPDVESYRI--LMQGLCRKSQVNRAVDLLEDMLN  264 (470)
Q Consensus       231 ~~~p~~~~~~~--ll~~~~~~~~~~~a~~~~~~~~~  264 (470)
                      .  |+ .+|..  ....-+..|.+.++...+.....
T Consensus       626 r--P~-s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  626 R--PL-SKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             C--cH-hHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3  22 33332  23345677888888888877654

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

Probab=98.27  E-value=7.7e-05  Score=58.73  Aligned_cols=97  Identities=13%  Similarity=-0.003  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSL  281 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  281 (470)
                      .....+...+...|++++|.+.|+.....+.. +...+..+..++...|++++|...++...+.+.. +...+..+..+|
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALDPD-DPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC-ChHHHHHHHHHH
Confidence            33444555555666666666666666554322 4555555666666666666666666665554422 444555555566


Q ss_pred             HhcCCHHHHHHHHHHHHHc
Q 012126          282 CRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       282 ~~~~~~~~a~~~~~~m~~~  300 (470)
                      ...|+.++|...|+...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6666666666666665554

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

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.25  E-value=0.0012  Score=55.55  Aligned_cols=186  Identities=15%  Similarity=0.133  Sum_probs=124.6

Q ss_pred             CchHHHHHHHHHhhC---C-CCCCH-HHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhh
Q 012126          110 YFSLIDDILITLKSE---H-YPVTP-SLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRP  184 (470)
Q Consensus       110 ~~~~a~~~~~~~~~~---~-~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~  184 (470)
                      +.++..+++..+...   | ..++. .+|..++-+...+|+.+.|...++.+...-  |...-...+-.......|.+++
T Consensus        27 nseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   27 NSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             CHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchhh
Confidence            344555555444322   2 22333 234456666677888888888888877642  5555555555555666677888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 012126          185 AFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLN  264 (470)
Q Consensus       185 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  264 (470)
                      |+++++.+.+.+. .|..++-.=+...-..|+--+|++-+.+..+. +..|...|.-+...|...|++++|.-.+++++-
T Consensus       105 A~e~y~~lL~ddp-t~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  105 AIEYYESLLEDDP-TDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHHhccCc-chhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            8888888887763 36666665555566677777888888777776 444888888888888888888888888888877


Q ss_pred             CCCCCCHhhHHHHHHHHHhcC---CHHHHHHHHHHHHHc
Q 012126          265 KGFVPDTLSYTTLLNSLCRKK---KLREAYKLLCRMKVK  300 (470)
Q Consensus       265 ~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~  300 (470)
                      ..+. +...|..+.+.+.-.|   +.+.+.+.|.+..+.
T Consensus       183 ~~P~-n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  183 IQPF-NPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             cCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            6433 5555666666554433   566777778777765

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

Probab=98.22  E-value=0.00099  Score=61.31  Aligned_cols=107  Identities=14%  Similarity=0.050  Sum_probs=48.6

Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 012126          182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLED  261 (470)
Q Consensus       182 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  261 (470)
                      .+.|+..++.+.+.-. -|...+......+.+.|+.++|.+.++++....+. .....-.+..++.+.|++.+|+.+++.
T Consensus       322 ~d~A~~~l~~L~~~~P-~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~-~~~l~~~~a~all~~g~~~eai~~L~~  399 (484)
T COG4783         322 YDEALKLLQPLIAAQP-DNPYYLELAGDILLEANKAKEAIERLKKALALDPN-SPLLQLNLAQALLKGGKPQEAIRILNR  399 (484)
T ss_pred             cchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-ccHHHHHHHHHHHhcCChHHHHHHHHH
Confidence            4555555555444321 13333334444555555555555555555444211 123333344445555555555555555


Q ss_pred             HHhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 012126          262 MLNKGFVPDTLSYTTLLNSLCRKKKLREAY  291 (470)
Q Consensus       262 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  291 (470)
                      ....... |...|..|..+|...|+..++.
T Consensus       400 ~~~~~p~-dp~~w~~LAqay~~~g~~~~a~  428 (484)
T COG4783         400 YLFNDPE-DPNGWDLLAQAYAELGNRAEAL  428 (484)
T ss_pred             HhhcCCC-CchHHHHHHHHHHHhCchHHHH
Confidence            4444322 4445555555555555544443

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

Probab=98.22  E-value=8.2e-05  Score=58.59  Aligned_cols=96  Identities=16%  Similarity=0.069  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012126          237 ESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGF  316 (470)
Q Consensus       237 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  316 (470)
                      .....+...+...|++++|.+.++.+...+.. +...+..+..++.+.|++++|..++++..+.+ +.+...+..+...|
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            34445555566666666666666666554432 55555566666666666666666666655542 23445555555566


Q ss_pred             HhcCCHhHHHHHHHhchh
Q 012126          317 CREGRAIDACKVLEDMPS  334 (470)
Q Consensus       317 ~~~~~~~~a~~~~~~m~~  334 (470)
                      ...|++++|...|+...+
T Consensus        96 ~~~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        96 LALGEPESALKALDLAIE  113 (135)
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            666666666666666555

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

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.21  E-value=0.0016  Score=54.77  Aligned_cols=187  Identities=12%  Similarity=0.084  Sum_probs=109.7

Q ss_pred             cCChhHHHHHHHHHHHC---C-CCCCHH-HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhcCCH
Q 012126          214 NGDISIAYTLFNKMFER---G-VMPDVE-SYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDT-LSYTTLLNSLCRKKKL  287 (470)
Q Consensus       214 ~g~~~~a~~~~~~m~~~---~-~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~  287 (470)
                      ..+.++..+++.++...   | ..++.. .|..++-+....|+.+.|...++.+.+.-  |.. .+-..-.-.+-..|++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhch
Confidence            45667777777766532   3 333332 34445555666777777777777766553  222 2211111223346777


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 012126          288 REAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLM  367 (470)
Q Consensus       288 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  367 (470)
                      ++|.++++.+.+.. +.|.+++-.=+...-..|+--+|++-+.+..+. +..|...|.-+...|...|++++|.-.++++
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            77777777777664 334555555555555666666777777666665 4557777777777777777777777777777


Q ss_pred             HHCCCCCCHHHHHHHHHHHHcc---CCHHHHHHHHHHHHHC
Q 012126          368 ISKGFSPHFSVSHALIKGFCNV---GKVDEACGVLEELLKA  405 (470)
Q Consensus       368 ~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~~~~~  405 (470)
                      +-.. +-+...+..+.+.+.-.   .+++-|.++|.+.++.
T Consensus       181 ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  181 LLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            6532 22333444444443322   2456667777776663

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.17  E-value=0.0099  Score=58.94  Aligned_cols=191  Identities=10%  Similarity=0.044  Sum_probs=117.6

Q ss_pred             HhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchh
Q 012126           69 IASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDR  148 (470)
Q Consensus        69 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  148 (470)
                      +.+.|..++|..+++.....+  ..|..|...+-..|.+.++.++|..+|++.....  |+......+..+|++.+.+.+
T Consensus        53 l~r~gk~~ea~~~Le~~~~~~--~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~  128 (932)
T KOG2053|consen   53 LFRLGKGDEALKLLEALYGLK--GTDDLTLQFLQNVYRDLGKLDEAVHLYERANQKY--PSEELLYHLFMAYVREKSYKK  128 (932)
T ss_pred             HHHhcCchhHHHHHhhhccCC--CCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHH
Confidence            356788888888888765443  3477788888888888888999998888887664  557777778888888776644


Q ss_pred             ----HHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCC---------hhhHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhc
Q 012126          149 ----ALKTFRSMLEFNCKPLPKQLNRILELLVTHRNY---------LRPAFDLFKSAHKHG-VLPNTKSYNIMMRAFCFN  214 (470)
Q Consensus       149 ----A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~---------~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~  214 (470)
                          |+++++...+     ....+-.+++.+......         ..-|.+.++.+.+.+ ..-+..-...-...+-..
T Consensus       129 qQkaa~~LyK~~pk-----~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~  203 (932)
T KOG2053|consen  129 QQKAALQLYKNFPK-----RAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQ  203 (932)
T ss_pred             HHHHHHHHHHhCCc-----ccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhc
Confidence                5555553322     334444444444432221         234666677766544 221222222333445567


Q ss_pred             CChhHHHHHH-HHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC
Q 012126          215 GDISIAYTLF-NKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV  268 (470)
Q Consensus       215 g~~~~a~~~~-~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  268 (470)
                      |++++|.+++ ....+.-...+...-+.-+..+...+++.+..++-.++...|..
T Consensus       204 ~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~D  258 (932)
T KOG2053|consen  204 GKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGND  258 (932)
T ss_pred             ccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCCc
Confidence            8888888888 33444333334444455566666777777777777776666543

>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=98.15  E-value=0.00011  Score=67.93  Aligned_cols=118  Identities=13%  Similarity=0.053  Sum_probs=58.3

Q ss_pred             HHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 012126          313 VLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKV  392 (470)
Q Consensus       313 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  392 (470)
                      +..+...++++.|+.+++++.+..  |+  ....++..+...++-.+|.+++++.++. .+.+......-...|.+.+++
T Consensus       176 l~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k~~~  250 (395)
T PF09295_consen  176 LKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKKKY  250 (395)
T ss_pred             HHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCH
Confidence            333444455555555555555432  32  2223444444445555555555555543 122344444444555555555


Q ss_pred             HHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCcHHHHHHHHHHH
Q 012126          393 DEACGVLEELLKAGEAPH-EDTWVMIVPQICAGEEMEKLGEVLNEI  437 (470)
Q Consensus       393 ~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~m  437 (470)
                      +.|+++.+++.+..  |+ ..+|..|..+|.+.|++++|+..++.+
T Consensus       251 ~lAL~iAk~av~ls--P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  251 ELALEIAKKAVELS--PSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             HHHHHHHHHHHHhC--chhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            55555555555532  22 335555555555555555555555544

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=98.15  E-value=0.00013  Score=67.45  Aligned_cols=125  Identities=18%  Similarity=0.195  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 012126          203 SYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLC  282 (470)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  282 (470)
                      ....|++.+...++++.|..+|+++.+..  |+  ....++..+...++..+|++++.+..+.... +......-.+.+.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~-d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQ-DSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            34456667777888999999999988874  33  4445778888888888999998888876443 5666666677788


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          283 RKKKLREAYKLLCRMKVKGCNPD-IVHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       283 ~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      +.++.+.|+.+.+++.+.  .|+ -.+|..|..+|.+.|+++.|+..++.+.-
T Consensus       246 ~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             hcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            889999999999998876  444 45889999999999999999988887753

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

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.11  E-value=0.013  Score=58.17  Aligned_cols=223  Identities=13%  Similarity=0.098  Sum_probs=109.9

Q ss_pred             HccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHH--HHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChh
Q 012126          106 GRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKI--YAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLR  183 (470)
Q Consensus       106 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~  183 (470)
                      ...++|..|......+.+..  |+.. |...+.+  ..+.|+.++|..+++.....+  ++....-..+..+++..+..+
T Consensus        20 ld~~qfkkal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~--~~D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLK--GTDDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCC--CCchHHHHHHHHHHHHHhhhh
Confidence            45567777777777766553  2221 2223332  346677777777666655432  333333344555555666677


Q ss_pred             hHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC----------hH
Q 012126          184 PAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQ----------VN  253 (470)
Q Consensus       184 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~----------~~  253 (470)
                      +|..+|+......  |+......+..+|.+.+++.+-.++--++-+. .+-+...+=.+++.......          ..
T Consensus        95 ~~~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~  171 (932)
T KOG2053|consen   95 EAVHLYERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLA  171 (932)
T ss_pred             HHHHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHH
Confidence            7777777766543  55555666666666666665443333333222 11122333333333333211          12


Q ss_pred             HHHHHHHHHHhCC-CCCCHhhHHHHHHHHHhcCCHHHHHHHHHH-HHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHh
Q 012126          254 RAVDLLEDMLNKG-FVPDTLSYTTLLNSLCRKKKLREAYKLLCR-MKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLED  331 (470)
Q Consensus       254 ~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~-m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  331 (470)
                      -|.+.++.+.+.+ ..-+..-.-.-...+...|++++|.+++.. ..+.-..-+...-+.-+..+...+++.+..++-.+
T Consensus       172 LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~  251 (932)
T KOG2053|consen  172 LAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSR  251 (932)
T ss_pred             HHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHH
Confidence            2444444444433 111111111122233445667777776632 33222222333334455566666777776666666


Q ss_pred             chhCC
Q 012126          332 MPSNG  336 (470)
Q Consensus       332 m~~~~  336 (470)
                      +...|
T Consensus       252 Ll~k~  256 (932)
T KOG2053|consen  252 LLEKG  256 (932)
T ss_pred             HHHhC
Confidence            66654

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.10  E-value=6.3e-06  Score=47.37  Aligned_cols=32  Identities=38%  Similarity=0.796  Sum_probs=15.5

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC
Q 012126          379 SHALIKGFCNVGKVDEACGVLEELLKAGEAPH  410 (470)
Q Consensus       379 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~  410 (470)
                      |+++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         3 ~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         3 YNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            44444444444444444444444444444443

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.

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

Probab=98.09  E-value=7.2e-05  Score=69.40  Aligned_cols=124  Identities=13%  Similarity=0.154  Sum_probs=96.1

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhh
Q 012126          196 GVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFER--GVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLS  273 (470)
Q Consensus       196 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  273 (470)
                      +...+......+++.+....+++.+..++.+....  ....-..|.+++++.|.+.|..+.++.++..=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            33457777778888888888888888888887765  2322345667888888888888999888888888888889999


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 012126          274 YTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCRE  319 (470)
Q Consensus       274 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  319 (470)
                      ++.||+.+.+.|++..|.++...|...+...+..++...+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999998888888887776666667776666666555

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 [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.09  E-value=6.5e-06  Score=47.30  Aligned_cols=34  Identities=21%  Similarity=0.448  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCc
Q 012126          413 TWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDT  446 (470)
Q Consensus       413 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  446 (470)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            7999999999999999999999999999999983

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

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

Probab=98.08  E-value=0.00036  Score=55.59  Aligned_cols=85  Identities=15%  Similarity=0.114  Sum_probs=33.1

Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCCH--hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 012126          244 QGLCRKSQVNRAVDLLEDMLNKGFVPDT--LSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGR  321 (470)
Q Consensus       244 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  321 (470)
                      ..+...|++++|...|+........++.  .....|...+...|++++|+..++.....  ......+......|.+.|+
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~  133 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGD  133 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCC
Confidence            3444444444444444444443321111  12222333444444444444444332221  1122233333344444444


Q ss_pred             HhHHHHHHH
Q 012126          322 AIDACKVLE  330 (470)
Q Consensus       322 ~~~a~~~~~  330 (470)
                      .++|...|+
T Consensus       134 ~~~A~~~y~  142 (145)
T PF09976_consen  134 YDEARAAYQ  142 (145)
T ss_pred             HHHHHHHHH
Confidence            444444443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.06  E-value=7.1e-06  Score=46.80  Aligned_cols=33  Identities=42%  Similarity=0.699  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMP  234 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  234 (470)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            356666666666666666666666666665554

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

Probab=98.05  E-value=0.00029  Score=56.18  Aligned_cols=20  Identities=5%  Similarity=0.054  Sum_probs=8.2

Q ss_pred             HHHHHHHcCCcHHHHHHHHH
Q 012126          416 MIVPQICAGEEMEKLGEVLN  435 (470)
Q Consensus       416 ~l~~~~~~~g~~~~a~~~~~  435 (470)
                      .....|.+.|++++|...|+
T Consensus       123 ~~Gdi~~~~g~~~~A~~~y~  142 (145)
T PF09976_consen  123 LLGDIYLAQGDYDEARAAYQ  142 (145)
T ss_pred             HHHHHHHHCCCHHHHHHHHH
Confidence            33334444444444444443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.05  E-value=9.3e-06  Score=46.29  Aligned_cols=32  Identities=25%  Similarity=0.479  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC
Q 012126          378 VSHALIKGFCNVGKVDEACGVLEELLKAGEAP  409 (470)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p  409 (470)
                      +|+.++.+|++.|+++.|.++|++|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            44444444444444444444444444444443

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

Probab=98.02  E-value=9.1e-05  Score=68.71  Aligned_cols=120  Identities=15%  Similarity=0.154  Sum_probs=67.1

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHH
Q 012126          270 DTLSYTTLLNSLCRKKKLREAYKLLCRMKVK--GCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTL  347 (470)
Q Consensus       270 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  347 (470)
                      +......+++.+....+++.+..++.+....  ....-..|..++|+.|.+.|..++++.+++.=...|+-||..+++.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            5555555566555555566666666555443  11122234446666666666666666666666666666666666666


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 012126          348 VGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNV  389 (470)
Q Consensus       348 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  389 (470)
                      ++.+.+.|++..|.++...|...+...+..++..-+.+|.+.
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            666666666666666666655554444444444444444433

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 [].

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

Probab=97.87  E-value=0.00043  Score=50.36  Aligned_cols=77  Identities=12%  Similarity=0.300  Sum_probs=53.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHccC--------CHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMISKGF-SPHFSVSHALIKGFCNVG--------KVDEACGVLEELLKAGEAPHEDTWVMI  417 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g--------~~~~a~~~~~~~~~~~~~p~~~~~~~l  417 (470)
                      .|..|...+++.....+|+.+++.|+ .|+..+|+.++.+..+..        ++-+.+.+|+.|+..+++|+..+|+.+
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYniv  110 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIV  110 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            34445555777777777777777777 677777777776665432        244566778888888888888888888


Q ss_pred             HHHHHc
Q 012126          418 VPQICA  423 (470)
Q Consensus       418 ~~~~~~  423 (470)
                      +..+.+
T Consensus       111 l~~Llk  116 (120)
T PF08579_consen  111 LGSLLK  116 (120)
T ss_pred             HHHHHH
Confidence            877654

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

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

Probab=97.86  E-value=0.00029  Score=51.26  Aligned_cols=76  Identities=21%  Similarity=0.471  Sum_probs=42.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHHcCC--------hHHHHHHHHHHHhCCCCCCHhhHHHH
Q 012126          207 MMRAFCFNGDISIAYTLFNKMFERGV-MPDVESYRILMQGLCRKSQ--------VNRAVDLLEDMLNKGFVPDTLSYTTL  277 (470)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~--------~~~a~~~~~~~~~~~~~~~~~~~~~l  277 (470)
                      .|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..-        .-..+.+|+.|...+++|+..+|+.+
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYniv  110 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIV  110 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            34444445666666666666666666 6666666666665554321        23344555555555555555555555


Q ss_pred             HHHHH
Q 012126          278 LNSLC  282 (470)
Q Consensus       278 l~~~~  282 (470)
                      +..+.
T Consensus       111 l~~Ll  115 (120)
T PF08579_consen  111 LGSLL  115 (120)
T ss_pred             HHHHH
Confidence            55443

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 [, , ].

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.79  E-value=0.00079  Score=51.45  Aligned_cols=98  Identities=15%  Similarity=0.096  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC--CCHHHHHHHH
Q 012126          343 SYRTLVGGLCDQGMFDVAKKYMQLMISKGF--SPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEA--PHEDTWVMIV  418 (470)
Q Consensus       343 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--p~~~~~~~l~  418 (470)
                      ++..+...+.+.|++++|.+.+..+.+..-  ......+..+..++.+.|++++|...|+.+......  .....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344455556666677777777666665321  111234455666666777777777777766653211  1134555666


Q ss_pred             HHHHcCCcHHHHHHHHHHHHHc
Q 012126          419 PQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       419 ~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      .++.+.|++++|.+.++++++.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6666677777777777776654

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.78  E-value=0.00051  Score=49.68  Aligned_cols=93  Identities=15%  Similarity=0.143  Sum_probs=54.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 012126          345 RTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAG  424 (470)
Q Consensus       345 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  424 (470)
                      ..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|.+.++...+... .+..++..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDP-DNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC-cchhHHHHHHHHHHHH
Confidence            344455555666666666666665542 22334555556666666666666666666655432 2334566666666666


Q ss_pred             CcHHHHHHHHHHHHH
Q 012126          425 EEMEKLGEVLNEIVK  439 (470)
Q Consensus       425 g~~~~a~~~~~~m~~  439 (470)
                      |++++|...+....+
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            667777666666653

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

Probab=97.78  E-value=3.9e-05  Score=42.54  Aligned_cols=29  Identities=34%  Similarity=0.784  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 012126          378 VSHALIKGFCNVGKVDEACGVLEELLKAG  406 (470)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~  406 (470)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            34444444444444444444444444433

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.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.74  E-value=0.00087  Score=48.43  Aligned_cols=91  Identities=16%  Similarity=0.151  Sum_probs=44.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 012126          206 IMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKK  285 (470)
Q Consensus       206 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  285 (470)
                      .+...+...|++++|..++++..+.... +...+..+..++...+++++|.+.++...+.... +..++..+...+...|
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~   82 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHHHH
Confidence            3444445555555555555555443221 2244444555555555555555555555444322 2234444445555555


Q ss_pred             CHHHHHHHHHHHH
Q 012126          286 KLREAYKLLCRMK  298 (470)
Q Consensus       286 ~~~~a~~~~~~m~  298 (470)
                      +.+.|...+....
T Consensus        83 ~~~~a~~~~~~~~   95 (100)
T cd00189          83 KYEEALEAYEKAL   95 (100)
T ss_pred             hHHHHHHHHHHHH
Confidence            5555555554443

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

Probab=97.73  E-value=5.3e-05  Score=42.00  Aligned_cols=31  Identities=23%  Similarity=0.342  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHHccc
Q 012126          412 DTWVMIVPQICAGEEMEKLGEVLNEIVKVEI  442 (470)
Q Consensus       412 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  442 (470)
                      .+|+.++++|++.|++++|.+++++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3799999999999999999999999998874

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.

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.72  E-value=0.0031  Score=51.88  Aligned_cols=91  Identities=8%  Similarity=0.013  Sum_probs=63.2

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPD--VESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTL  277 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  277 (470)
                      ....+..+...+...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|+..+.+..+.... +...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHH
Confidence            344566777777888888888888888876543332  356777778888888888888888888775433 45566666


Q ss_pred             HHHHHhcCCHHHHH
Q 012126          278 LNSLCRKKKLREAY  291 (470)
Q Consensus       278 l~~~~~~~~~~~a~  291 (470)
                      ..++...|+...+.
T Consensus       113 g~~~~~~g~~~~a~  126 (172)
T PRK02603        113 AVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHcCChHhHh
Confidence            66777766654443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.71  E-value=0.0022  Score=48.97  Aligned_cols=97  Identities=13%  Similarity=-0.003  Sum_probs=49.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC--CHhhHHHHHH
Q 012126          204 YNIMMRAFCFNGDISIAYTLFNKMFERGVM--PDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVP--DTLSYTTLLN  279 (470)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~  279 (470)
                      +..+...+.+.|++++|.+.|+.+......  .....+..+..++.+.|+++.|...|+.+.......  ....+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            344455555566666666666665543211  012344445555666666666666666555432211  1233444555


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 012126          280 SLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      ++.+.|+.++|...++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            555566666666666655554

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.70  E-value=0.024  Score=49.39  Aligned_cols=177  Identities=13%  Similarity=0.097  Sum_probs=92.3

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhH---HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 012126          242 LMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSY---TTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCR  318 (470)
Q Consensus       242 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  318 (470)
                      ....+...|++++|++.|+++...-+.. ....   -.+..++.+.+++++|...+++..+....-....|...+.+.+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~  116 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            3334455666666666666666543322 1221   23445556666666666666666554211111222222332221


Q ss_pred             --c---------------CC---HhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 012126          319 --E---------------GR---AIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSV  378 (470)
Q Consensus       319 --~---------------~~---~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  378 (470)
                        .               .+   ..+|+..|+++++               -|=...-..+|...+..+... +   ...
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~---------------~yP~S~ya~~A~~rl~~l~~~-l---a~~  177 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVR---------------GYPNSQYTTDATKRLVFLKDR-L---AKY  177 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHH---------------HCcCChhHHHHHHHHHHHHHH-H---HHH
Confidence              0               01   1233344444333               333333344454444444331 0   011


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Q 012126          379 SHALIKGFCNVGKVDEACGVLEELLKA--GEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       379 ~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  438 (470)
                      --.+..-|.+.|.+..|..-++.+++.  +.+........++.+|...|..++|.+....+.
T Consensus       178 e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        178 ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            124556688888888888888888765  333445567777888888888888887766553

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.69  E-value=0.002  Score=50.68  Aligned_cols=99  Identities=8%  Similarity=-0.103  Sum_probs=77.1

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLN  279 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  279 (470)
                      +......+...+...|++++|.++|+.+....+. +..-|-.|.-++-..|++++|+..|......++. |...+-.+..
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~  111 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAE  111 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHH
Confidence            3444555666677889999999999888776544 5666777788888888999999999888887754 7777778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 012126          280 SLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      ++...|+.+.|.+-|+..+..
T Consensus       112 c~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        112 CYLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            888889999988888877654

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

Probab=97.68  E-value=8.4e-05  Score=52.87  Aligned_cols=81  Identities=21%  Similarity=0.292  Sum_probs=48.4

Q ss_pred             cCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHH
Q 012126          354 QGMFDVAKKYMQLMISKGF-SPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGE  432 (470)
Q Consensus       354 ~g~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  432 (470)
                      .|+++.|+.+++++.+... .++...+..+..+|.+.|++++|..+++. .+.+. .+......+..++.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            4667777777777776532 11334444567777777777777777766 22221 123444455667777777777777


Q ss_pred             HHHH
Q 012126          433 VLNE  436 (470)
Q Consensus       433 ~~~~  436 (470)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            7765

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

Probab=97.66  E-value=0.0011  Score=59.13  Aligned_cols=130  Identities=13%  Similarity=0.095  Sum_probs=78.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHH
Q 012126          272 LSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLG-FCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGG  350 (470)
Q Consensus       272 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  350 (470)
                      .+|..+++..-+.+..+.|..+|.+..+.+ ..+...|-..... |...++.+.|.++|+...+. +..+...|...+.-
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            356667777777777777777777776542 1123333333333 22245566677777776654 44456666667777


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          351 LCDQGMFDVAKKYMQLMISKGFSPH---FSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       351 ~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      +...|+.+.|..+|++.+.. +.++   ..+|...+..=.+.|+++.+.++.+++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77777777777777777654 2222   23677777777777777777777777766

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.65  E-value=0.048  Score=50.17  Aligned_cols=138  Identities=12%  Similarity=0.102  Sum_probs=89.6

Q ss_pred             HhHHHHHHHhchhCCCCC-CHHHHHHH----HHHHHh---cCChHHHHHHHHHHHHCCCCC----CHHHHHHHHHH--HH
Q 012126          322 AIDACKVLEDMPSNGCLP-NLVSYRTL----VGGLCD---QGMFDVAKKYMQLMISKGFSP----HFSVSHALIKG--FC  387 (470)
Q Consensus       322 ~~~a~~~~~~m~~~~~~p-~~~~~~~l----i~~~~~---~g~~~~a~~~~~~~~~~~~~~----~~~~~~~li~~--~~  387 (470)
                      -++|+++++.+.+-  .+ |...-|.+    =.+|.+   ...+....++-+-+.+.|+.|    +...-|.|.++  +.
T Consensus       396 dekalnLLk~il~f--t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLy  473 (549)
T PF07079_consen  396 DEKALNLLKLILQF--TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLY  473 (549)
T ss_pred             cHHHHHHHHHHHHh--ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHH
Confidence            55667777666552  22 22222222    123322   334555555556666677765    34455666554  56


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCceeeecccchhhHhhHHhhcCC
Q 012126          388 NVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIGLEDYLIGKTRSRP  467 (470)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~  467 (470)
                      ..|++.++.-.-.-+.+  +.|++.+|..+.-++....++++|..++.++     .|+..+.+.-+--...+.-|+-+|+
T Consensus       474 sqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L-----P~n~~~~dskvqKAl~lCqKh~~kd  546 (549)
T PF07079_consen  474 SQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL-----PPNERMRDSKVQKALALCQKHLPKD  546 (549)
T ss_pred             hcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC-----CCchhhHHHHHHHHHHHHHHhhhhh
Confidence            78999998877666666  7799999999999999999999999999865     4666666665555555556666555


Q ss_pred             C
Q 012126          468 R  468 (470)
Q Consensus       468 ~  468 (470)
                      +
T Consensus       547 ~  547 (549)
T PF07079_consen  547 L  547 (549)
T ss_pred             h
Confidence            4

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.64  E-value=0.00034  Score=60.28  Aligned_cols=100  Identities=15%  Similarity=0.143  Sum_probs=66.6

Q ss_pred             HHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHH
Q 012126          316 FCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEA  395 (470)
Q Consensus       316 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  395 (470)
                      +.+.+++.+|+..|.+.++.. +-|.+.|..-..+|.+.|.++.|++-.+..+..+ +.....|..|..+|...|++++|
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            556777777777777777742 2355566666777777777777777777766642 12245777777777777777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          396 CGVLEELLKAGEAPHEDTWVMIVP  419 (470)
Q Consensus       396 ~~~~~~~~~~~~~p~~~~~~~l~~  419 (470)
                      .+.|++.++  +.|+..+|..=+.
T Consensus       169 ~~aykKaLe--ldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  169 IEAYKKALE--LDPDNESYKSNLK  190 (304)
T ss_pred             HHHHHhhhc--cCCCcHHHHHHHH
Confidence            777777776  4566666654443

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

Probab=97.64  E-value=0.0024  Score=57.02  Aligned_cols=128  Identities=17%  Similarity=0.111  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH-cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 012126          203 SYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCR-KSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSL  281 (470)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  281 (470)
                      +|..+|+..-+.+..+.|..+|.+..+.+ ..+..+|......-.. .++.+.|..+|+...+. +..+...|..-++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            45555666666666666666666665332 1133333333333222 34445566666665544 222455555555666


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          282 CRKKKLREAYKLLCRMKVKGCNPDI----VHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       282 ~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      .+.++.+.|..+|++....  .+..    ..|...+..=.+.|+.+.+.++.+.+.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~--l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS--LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT--SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh--cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6666666666666665544  2222    2555555555555666666666555555

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.

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

Probab=97.60  E-value=0.0014  Score=60.80  Aligned_cols=105  Identities=10%  Similarity=-0.037  Sum_probs=82.6

Q ss_pred             HHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC
Q 012126           66 QKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNL  145 (470)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  145 (470)
                      +......+++..|++.|+.+....  +.+...|..+..++.+.|++++|...++.+.... |.+...|..+..+|...|+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~--P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD--PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            355567889999999999887654  4567788888888899999999999999988775 5677888888889999999


Q ss_pred             chhHHHHHHHHHhCCCccCHHHHHHHHHHH
Q 012126          146 PDRALKTFRSMLEFNCKPLPKQLNRILELL  175 (470)
Q Consensus       146 ~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~  175 (470)
                      +++|+..|++.++  +.|+.......+..+
T Consensus        86 ~~eA~~~~~~al~--l~P~~~~~~~~l~~~  113 (356)
T PLN03088         86 YQTAKAALEKGAS--LAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            9999999998887  346655555554443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.59  E-value=0.023  Score=49.46  Aligned_cols=185  Identities=10%  Similarity=0.081  Sum_probs=110.5

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHH--HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVES--YRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTL  277 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  277 (470)
                      +...+-.....+...|++++|.+.|+++....+......  .-.+..++.+.+++++|...+++..+..+.-....+...
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            344444455556678999999999998887644332111  234567788889999999999988876544333334333


Q ss_pred             HHHHHh--c---------------CCH---HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCC
Q 012126          278 LNSLCR--K---------------KKL---REAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGC  337 (470)
Q Consensus       278 l~~~~~--~---------------~~~---~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  337 (470)
                      +.+.+.  .               .|.   ..|...|+.+++.               |-...-..+|...+..+...  
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~---------------yP~S~ya~~A~~rl~~l~~~--  173 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG---------------YPNSQYTTDATKRLVFLKDR--  173 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH---------------CcCChhHHHHHHHHHHHHHH--
Confidence            333321  1               111   2333444444443               33334455555544444332  


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 012126          338 LPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK--GFSPHFSVSHALIKGFCNVGKVDEACGVLEELL  403 (470)
Q Consensus       338 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  403 (470)
                       .-..-+ .+..-|.+.|.+..|..-++.+++.  +.+........++.+|...|..++|.++...+.
T Consensus       174 -la~~e~-~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        174 -LAKYEL-SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             -HHHHHH-HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence             111112 3456678888888888888888874  223345566677788888888888888776553

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

Probab=97.59  E-value=0.00017  Score=51.31  Aligned_cols=17  Identities=24%  Similarity=0.403  Sum_probs=6.5

Q ss_pred             HHHHHHcCChHHHHHHH
Q 012126          243 MQGLCRKSQVNRAVDLL  259 (470)
Q Consensus       243 l~~~~~~~~~~~a~~~~  259 (470)
                      ..+|.+.|++++|+.++
T Consensus        32 a~~~~~~~~y~~A~~~~   48 (84)
T PF12895_consen   32 AQCYFQQGKYEEAIELL   48 (84)
T ss_dssp             HHHHHHTTHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHH
Confidence            33333333333333333

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.58  E-value=0.056  Score=49.01  Aligned_cols=122  Identities=17%  Similarity=0.160  Sum_probs=90.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHH
Q 012126          272 LSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGL  351 (470)
Q Consensus       272 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  351 (470)
                      .+.+..|.-+...|+...|.++-.+..    .|+..-|...+.+++..++|++..++... .     -++.-|..++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s-k-----KsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS-K-----KSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-C-----CCCCChHHHHHHH
Confidence            345555667777899888888876664    46888899999999999999988876543 1     2347788899999


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          352 CDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVP  419 (470)
Q Consensus       352 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  419 (470)
                      .+.|+..+|..+..++     +     +..-+..|.++|++.+|.+.-.+.      -|...+..+..
T Consensus       248 ~~~~~~~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~A~~~------kd~~~L~~i~~  299 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQEAFKE------KDIDLLKQILK  299 (319)
T ss_pred             HHCCCHHHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHHHHHc------CCHHHHHHHHH
Confidence            9999999999888772     1     255677888999999998765443      25555555544

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

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

Probab=97.56  E-value=0.0034  Score=58.23  Aligned_cols=87  Identities=18%  Similarity=0.051  Sum_probs=61.7

Q ss_pred             cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVD  257 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  257 (470)
                      ..++++.|+..|++.++.... +...|..+..+|...|++++|+..+++.++.... +...|..+..+|...|++++|+.
T Consensus        14 ~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg~~~eA~~   91 (356)
T PLN03088         14 VDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLEEYQTAKA   91 (356)
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCCHHHHHH
Confidence            445677777777777776543 5666777777777777777777777777766433 56667777777777777777777


Q ss_pred             HHHHHHhCC
Q 012126          258 LLEDMLNKG  266 (470)
Q Consensus       258 ~~~~~~~~~  266 (470)
                      .|++..+.+
T Consensus        92 ~~~~al~l~  100 (356)
T PLN03088         92 ALEKGASLA  100 (356)
T ss_pred             HHHHHHHhC
Confidence            777777654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.55  E-value=0.0017  Score=51.01  Aligned_cols=95  Identities=7%  Similarity=-0.051  Sum_probs=63.3

Q ss_pred             HHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          133 FTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFC  212 (470)
Q Consensus       133 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  212 (470)
                      .-.+...+...|++++|..+|+.+..  +.|....+..=|..+.+..|++++|+..|......++. |...+-.+..++.
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L  114 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHH
Confidence            33444555567777777777777666  44666666666666666677777777777777666543 6666667777777


Q ss_pred             hcCChhHHHHHHHHHHHC
Q 012126          213 FNGDISIAYTLFNKMFER  230 (470)
Q Consensus       213 ~~g~~~~a~~~~~~m~~~  230 (470)
                      ..|+.+.|.+-|+..+..
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            777777777777766544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.54  E-value=0.0056  Score=50.40  Aligned_cols=61  Identities=11%  Similarity=-0.021  Sum_probs=26.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          274 YTTLLNSLCRKKKLREAYKLLCRMKVKGCNPD--IVHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       274 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      +..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+.+..+
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  100 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE  100 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34444444445555555555555443321111  23344444444444444444444444443

>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=97.53  E-value=0.00097  Score=54.98  Aligned_cols=88  Identities=18%  Similarity=0.196  Sum_probs=59.6

Q ss_pred             CCCHHHHHHHHHHHHhc-----CCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhc----------------CChHHHH
Q 012126          303 NPDIVHYNTVVLGFCRE-----GRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQ----------------GMFDVAK  361 (470)
Q Consensus       303 ~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~----------------g~~~~a~  361 (470)
                      ..+..+|..+++.|.+.     |..+=....++.|.+-|+.-|..+|+.|++.+=+.                .+-+.|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            34778888888887644     55666666777788888888888888888876431                1235566


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 012126          362 KYMQLMISKGFSPHFSVSHALIKGFCNVG  390 (470)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g  390 (470)
                      +++++|...|+-||..++..++..|++.+
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence            66666666666666666666666665554

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

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.51  E-value=0.0035  Score=51.82  Aligned_cols=104  Identities=19%  Similarity=0.319  Sum_probs=54.0

Q ss_pred             CCHHHHHHHHHHHHHc-----CCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHH
Q 012126          128 VTPSLFTYLIKIYAES-----NLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTK  202 (470)
Q Consensus       128 ~~~~~~~~li~~~~~~-----g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  202 (470)
                      .+..+|..+++.|.+.     |.++-....+..|.+.|+.-|..+|+.||..+=+  |.+               .|.. 
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK--g~f---------------vp~n-  106 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK--GKF---------------VPRN-  106 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC--CCc---------------cccc-
Confidence            4666677666666553     3444444555555555555555555555554421  100               0111 


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 012126          203 SYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQ  251 (470)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  251 (470)
                      .+.++..-  .-.+.+-|++++++|...|+.||.+|+..+++.+.+.+.
T Consensus       107 ~fQ~~F~h--yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  107 FFQAEFMH--YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHhcc--CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            11111000  112345567777777777777777777777777765544

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

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.48  E-value=0.037  Score=44.53  Aligned_cols=128  Identities=17%  Similarity=0.109  Sum_probs=65.9

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCC---CCCCHHHH
Q 012126          268 VPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNG---CLPNLVSY  344 (470)
Q Consensus       268 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~  344 (470)
                      .|++..-..|..+....|+..+|...|++....-+--|....-.+.++....+++..|...++++.+.+   -.||  +.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GH  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--ch
Confidence            345555555556666666666666666665544344455555555555556666666666666555432   1222  22


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 012126          345 RTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVL  399 (470)
Q Consensus       345 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  399 (470)
                      -.+...+...|....|+..|+...+.  -|+...-......+.+.|+.+++..-+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~  216 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQY  216 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHH
Confidence            33445555566666666666665553  233333223333344555555444333

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.47  E-value=0.011  Score=56.91  Aligned_cols=238  Identities=14%  Similarity=0.085  Sum_probs=133.8

Q ss_pred             CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhC-CCcc--------CHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCC
Q 012126          127 PVTPSLFTYLIKIYAESNLPDRALKTFRSMLEF-NCKP--------LPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGV  197 (470)
Q Consensus       127 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~p--------~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~  197 (470)
                      .|.+..|..|.+.....-.++.|...|-+.... |++.        +...-..-+.+   --|.+++|+++|-++-+.+ 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~---~~g~feeaek~yld~drrD-  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISA---FYGEFEEAEKLYLDADRRD-  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhh---hhcchhHhhhhhhccchhh-
Confidence            467888888888777777777777777665432 2211        00000111111   2245777777776655432 


Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHH
Q 012126          198 LPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGV--MPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYT  275 (470)
Q Consensus       198 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  275 (470)
                              ..+..+.+.|++-.+.++++.-- .+.  .--...|+.+...++....+++|.+.|......         .
T Consensus       765 --------LAielr~klgDwfrV~qL~r~g~-~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------e  826 (1189)
T KOG2041|consen  765 --------LAIELRKKLGDWFRVYQLIRNGG-SDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------E  826 (1189)
T ss_pred             --------hhHHHHHhhhhHHHHHHHHHccC-CCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------H
Confidence                    33556666777766666654311 000  012355666777777777777777776553221         2


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcC
Q 012126          276 TLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQG  355 (470)
Q Consensus       276 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  355 (470)
                      ..++++.+..++++-+.+-+.+.+     +....-.+..++...|.-++|.+.+-+-..    |-     ..+..|...+
T Consensus       827 ~~~ecly~le~f~~LE~la~~Lpe-----~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----pk-----aAv~tCv~Ln  892 (1189)
T KOG2041|consen  827 NQIECLYRLELFGELEVLARTLPE-----DSELLPVMADMFTSVGMCDQAVEAYLRRSL----PK-----AAVHTCVELN  892 (1189)
T ss_pred             hHHHHHHHHHhhhhHHHHHHhcCc-----ccchHHHHHHHHHhhchHHHHHHHHHhccC----cH-----HHHHHHHHHH
Confidence            345666666666655555544433     445566677888888888888877654322    21     2456677777


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHH--------------HHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          356 MFDVAKKYMQLMISKGFSPHFSVS--------------HALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       356 ~~~~a~~~~~~~~~~~~~~~~~~~--------------~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      ++.+|.++-+...-    |...+.              ---|..+.+.|+.-+|.+++.+|.+
T Consensus       893 QW~~avelaq~~~l----~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae  951 (1189)
T KOG2041|consen  893 QWGEAVELAQRFQL----PQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAE  951 (1189)
T ss_pred             HHHHHHHHHHhccc----hhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhH
Confidence            77777776554311    111111              1134556677777777777777754

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.47  E-value=0.0089  Score=53.65  Aligned_cols=91  Identities=13%  Similarity=0.045  Sum_probs=50.1

Q ss_pred             HHHHHhc-CCHhHHHHHHHhchhC----CCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-----CHH-HH
Q 012126          313 VLGFCRE-GRAIDACKVLEDMPSN----GCLP--NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSP-----HFS-VS  379 (470)
Q Consensus       313 i~~~~~~-~~~~~a~~~~~~m~~~----~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~~-~~  379 (470)
                      ...|... |++++|++.|++..+.    | .+  -...+..+...+.+.|++++|.++|+++...-...     +.. .+
T Consensus       121 A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~  199 (282)
T PF14938_consen  121 AEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYF  199 (282)
T ss_dssp             HHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHH
Confidence            3345555 6777777777765432    2 11  12345556667777888888888887776643221     111 22


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          380 HALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       380 ~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      -..+-++...|++..|.+.+++...
T Consensus       200 l~a~l~~L~~~D~v~A~~~~~~~~~  224 (282)
T PF14938_consen  200 LKAILCHLAMGDYVAARKALERYCS  224 (282)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHGT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            2233355566777778777777765

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.47  E-value=0.0062  Score=49.90  Aligned_cols=94  Identities=7%  Similarity=-0.054  Sum_probs=60.4

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMP--DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLL  278 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  278 (470)
                      ...|..+...+...|++++|...|++.......+  ...++..+..++...|++++|+..++........ ...++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~-~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPF-LPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHH
Confidence            4556666777777888888888888876653322  2346777777888888888888888887765322 334455555


Q ss_pred             HHHH-------hcCCHHHHHHHHH
Q 012126          279 NSLC-------RKKKLREAYKLLC  295 (470)
Q Consensus       279 ~~~~-------~~~~~~~a~~~~~  295 (470)
                      ..+.       +.|+++.|...++
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHH
Confidence            5555       5556554444433

>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=97.46  E-value=0.00048  Score=46.59  Aligned_cols=64  Identities=16%  Similarity=0.199  Sum_probs=41.6

Q ss_pred             HccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHH
Q 012126          106 GRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRIL  172 (470)
Q Consensus       106 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll  172 (470)
                      .+.|++++|.++++.+.... |.+..++..+..+|.+.|++++|.++++.+...  .|+...+..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence            35567777777777776664 556677777777777777777777777777663  35555554443

...

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.44  E-value=0.0028  Score=51.93  Aligned_cols=63  Identities=13%  Similarity=-0.011  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          307 VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLP--NLVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       307 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      ..|..+...+...|++++|+..|+........+  ...++..+...+...|++++|...++...+
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334444455555556666666555554432111  123455555555566666666666655554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.42  E-value=0.02  Score=51.45  Aligned_cols=130  Identities=12%  Similarity=0.105  Sum_probs=58.2

Q ss_pred             HHHHHHHHhc-CChhHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC-----CHh-
Q 012126          205 NIMMRAFCFN-GDISIAYTLFNKMFER----GVM-PDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVP-----DTL-  272 (470)
Q Consensus       205 ~~li~~~~~~-g~~~~a~~~~~~m~~~----~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~-  272 (470)
                      ..+...|-.. |+++.|.+.|++..+.    |-. --..++..+...+.+.|++++|+++|++........     +.. 
T Consensus       118 ~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~  197 (282)
T PF14938_consen  118 KELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKE  197 (282)
T ss_dssp             HHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHH
Confidence            3444445454 5666666666554331    200 012344455566666666666666666665432211     111 


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCC--HHHHHHHHHHHHh--cCCHhHHHHHHHhchh
Q 012126          273 SYTTLLNSLCRKKKLREAYKLLCRMKVK--GCNPD--IVHYNTVVLGFCR--EGRAIDACKVLEDMPS  334 (470)
Q Consensus       273 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~~~--~~~~~~li~~~~~--~~~~~~a~~~~~~m~~  334 (470)
                      .|-..+-++...||...|.+.+++....  ++..+  ......||.+|-.  ...+.+++.-|+.+.+
T Consensus       198 ~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~  265 (282)
T PF14938_consen  198 YFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISR  265 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCc
Confidence            1222233444456666666666666543  11111  2334445555432  2234555555555544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.39  E-value=0.016  Score=56.36  Aligned_cols=61  Identities=11%  Similarity=0.056  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          307 VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       307 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      ..|.++.......|++++|...+++..+.+  |+...|..+...+...|+.++|...+++...
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            444444444444455555555555555532  4455555555555555555555555555544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.38  E-value=0.015  Score=56.58  Aligned_cols=71  Identities=18%  Similarity=0.041  Sum_probs=54.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 012126          340 NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTW  414 (470)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  414 (470)
                      +...|..+.-.....|++++|...++++++.+  |+...|..+...+...|+.++|.+.+++....+  |...+|
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~--P~~pt~  489 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR--PGENTL  489 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCchH
Confidence            45667766666666788999999999888864  677788888888888999999999998887744  555554

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.36  E-value=0.029  Score=47.73  Aligned_cols=221  Identities=13%  Similarity=0.117  Sum_probs=133.8

Q ss_pred             HHHHHHHHHHccCCchHHHHHHHHHhhCCCC-----------CC------HHHHHHHHH--HHHHcCCchhHHHHHHHHH
Q 012126           97 TYLILILKLGRAKYFSLIDDILITLKSEHYP-----------VT------PSLFTYLIK--IYAESNLPDRALKTFRSML  157 (470)
Q Consensus        97 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----------~~------~~~~~~li~--~~~~~g~~~~A~~~~~~~~  157 (470)
                      .|..-+..+.+.+.+++|..-+......+-|           |+      +.... ++.  +....|.+.+.+.-+..+.
T Consensus        71 ~wT~r~~~l~kLR~~~~a~~EL~~f~~lD~pdl~Yey~p~iyp~rrGSmVPFsmR-~lhAe~~~~lgnpqesLdRl~~L~  149 (366)
T KOG2796|consen   71 LWTVRLALLVKLRLFQNAEMELEPFGNLDQPDLYYEYYPHVYPGRRGSMVPFSMR-ILHAELQQYLGNPQESLDRLHKLK  149 (366)
T ss_pred             HHHHHHHHHHHHhhhHHHHhhhhhhccCCCcceeeeeccccCCCCcCccccHHHH-HHHHHHHHhcCCcHHHHHHHHHHH
Confidence            3455567788888888887666555433211           11      11111 222  2234677777666555544


Q ss_pred             hCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH
Q 012126          158 EFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVE  237 (470)
Q Consensus       158 ~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  237 (470)
                      ..        ....+... ..+...+....++++-.       ..+.+.++.++.-.|++.-....+++.++...+.+..
T Consensus       150 ~~--------V~~ii~~~-e~~~~~ESsv~lW~KRl-------~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~  213 (366)
T KOG2796|consen  150 TV--------VSKILANL-EQGLAEESSIRLWRKRL-------GRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQ  213 (366)
T ss_pred             HH--------HHHHHHHH-HhccchhhHHHHHHHHH-------HHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHH
Confidence            31        11112221 12222244444444332       3455667777777788888888888888887677788


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHH-----HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 012126          238 SYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLL-----NSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTV  312 (470)
Q Consensus       238 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll-----~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  312 (470)
                      ....|++.-.+.||.+.|...|++..+..-..|..+++.++     ..|.-.+++..|...+.++.... +.++..-|.-
T Consensus       214 L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnK  292 (366)
T KOG2796|consen  214 LLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNK  292 (366)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchH
Confidence            88888888888888888888888776554444555554443     33455678888888888776653 2244444443


Q ss_pred             HHHHHhcCCHhHHHHHHHhchhC
Q 012126          313 VLGFCREGRAIDACKVLEDMPSN  335 (470)
Q Consensus       313 i~~~~~~~~~~~a~~~~~~m~~~  335 (470)
                      .-+..-.|+..+|++.++.|.+.
T Consensus       293 ALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  293 ALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcc
Confidence            33444467888888888888875

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.34  E-value=0.0029  Score=54.75  Aligned_cols=104  Identities=13%  Similarity=0.048  Sum_probs=82.1

Q ss_pred             hcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhH
Q 012126           70 ASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRA  149 (470)
Q Consensus        70 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  149 (470)
                      -..+++.+|++.+..++...  +-+..-|..-..+|.+.|.++.|++=.+..+.-+ |....+|..|..+|...|++++|
T Consensus        92 m~~~~Y~eAv~kY~~AI~l~--P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIELD--PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcC--CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHH
Confidence            34678889999999888664  4566677778888999999999988888877765 55677888899999999999999


Q ss_pred             HHHHHHHHhCCCccCHHHHHHHHHHHHhc
Q 012126          150 LKTFRSMLEFNCKPLPKQLNRILELLVTH  178 (470)
Q Consensus       150 ~~~~~~~~~~~~~p~~~~~~~ll~~~~~~  178 (470)
                      ++.|++.++  +.|+..+|..-|...-..
T Consensus       169 ~~aykKaLe--ldP~Ne~~K~nL~~Ae~~  195 (304)
T KOG0553|consen  169 IEAYKKALE--LDPDNESYKSNLKIAEQK  195 (304)
T ss_pred             HHHHHhhhc--cCCCcHHHHHHHHHHHHH
Confidence            999988887  678888777666655433

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.30  E-value=0.0009  Score=44.74  Aligned_cols=56  Identities=14%  Similarity=0.294  Sum_probs=35.8

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          383 IKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      ...+...|++++|.+.|++.++... -+...|..+..++...|++++|...++++++
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQDP-DNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCST-THHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3456666777777777777766542 2455666666677777777777777777664

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.27  E-value=0.074  Score=51.11  Aligned_cols=258  Identities=15%  Similarity=0.086  Sum_probs=119.5

Q ss_pred             HHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCC
Q 012126          101 LILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRN  180 (470)
Q Consensus       101 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~  180 (470)
                      -+-.+...|.+++|.++-      +.......|..|.......=+++-|.+.|.+.....                    
T Consensus       562 ~m~q~Ieag~f~ea~~ia------clgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~--------------------  615 (1081)
T KOG1538|consen  562 PMYQYIERGLFKEAYQIA------CLGVTDTDWRELAMEALEALDFETARKAYIRVRDLR--------------------  615 (1081)
T ss_pred             cchhhhhccchhhhhccc------ccceecchHHHHHHHHHhhhhhHHHHHHHHHHhccH--------------------
Confidence            344556667776665432      222333445555555555555556665555443311                    


Q ss_pred             ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHHHH-----HHHHHHHHcCChHH
Q 012126          181 YLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPD-VESYR-----ILMQGLCRKSQVNR  254 (470)
Q Consensus       181 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~-----~ll~~~~~~~~~~~  254 (470)
                       +-+...-++++.+.|-.|+...   +...++-.|++.+|-++|.+-   |.... .+.|+     -..+-+...|+.++
T Consensus       616 -~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~---G~enRAlEmyTDlRMFD~aQE~~~~g~~~e  688 (1081)
T KOG1538|consen  616 -YLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRS---GHENRALEMYTDLRMFDYAQEFLGSGDPKE  688 (1081)
T ss_pred             -HHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHc---CchhhHHHHHHHHHHHHHHHHHhhcCChHH
Confidence             2223334456666666666543   234455567777777766542   22100 01111     12233334444433


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH------HHHHcCCC---CCHHHHHHHHHHHHhcCCHhHH
Q 012126          255 AVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLC------RMKVKGCN---PDIVHYNTVVLGFCREGRAIDA  325 (470)
Q Consensus       255 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~------~m~~~~~~---~~~~~~~~li~~~~~~~~~~~a  325 (470)
                      -..+.++-.+-  .-+..-=.+..+++...|+.++|..+.-      .+.+.+-+   .+..+...+...+.+...+.-|
T Consensus       689 KKmL~RKRA~W--Ar~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLA  766 (1081)
T KOG1538|consen  689 KKMLIRKRADW--ARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLA  766 (1081)
T ss_pred             HHHHHHHHHHH--hhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchH
Confidence            33333221110  0011111123344445566665555421      11111111   1333444444445555666667


Q ss_pred             HHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-----------HHHHHHHHHHccCCHHH
Q 012126          326 CKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFS-----------VSHALIKGFCNVGKVDE  394 (470)
Q Consensus       326 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-----------~~~~li~~~~~~g~~~~  394 (470)
                      -++|..|-+.         ..+++.....+++++|..+-+...+.  .+|..           -|.-.-.+|.+.|+-.+
T Consensus       767 aeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~E  835 (1081)
T KOG1538|consen  767 AEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQRE  835 (1081)
T ss_pred             HHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHH
Confidence            7777766442         33566667777777777776665442  23311           11122244556666666


Q ss_pred             HHHHHHHHHH
Q 012126          395 ACGVLEELLK  404 (470)
Q Consensus       395 a~~~~~~~~~  404 (470)
                      |.++++++..
T Consensus       836 A~~vLeQLtn  845 (1081)
T KOG1538|consen  836 AVQVLEQLTN  845 (1081)
T ss_pred             HHHHHHHhhh
Confidence            6666666543

>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=97.24  E-value=0.0019  Score=43.71  Aligned_cols=64  Identities=13%  Similarity=0.099  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC-cHHHHHHHHHHHHHc
Q 012126          376 FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGE-EMEKLGEVLNEIVKV  440 (470)
Q Consensus       376 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~~  440 (470)
                      ..+|..+...+...|++++|+..|++.++.+. -+...|..+..++...| ++++|++.+++.++.
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p-~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDP-NNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHST-THHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            45666666777777777777777777766542 24556666777777777 677777777776643

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.24  E-value=0.025  Score=42.84  Aligned_cols=88  Identities=20%  Similarity=0.187  Sum_probs=44.6

Q ss_pred             HHHHhcCCHhHHHHHHHhchhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHH
Q 012126          314 LGFCREGRAIDACKVLEDMPSNGCLPN--LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH----FSVSHALIKGFC  387 (470)
Q Consensus       314 ~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~  387 (470)
                      .++-..|+.++|+.+|++..+.|....  ...+..+...+...|++++|..++++.....  |+    ......+..++.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHH
Confidence            344455666666666666655554332  2234445555566666666666666655431  21    111122223455


Q ss_pred             ccCCHHHHHHHHHHHH
Q 012126          388 NVGKVDEACGVLEELL  403 (470)
Q Consensus       388 ~~g~~~~a~~~~~~~~  403 (470)
                      ..|+.++|...+-..+
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            5666666666555443

>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=97.22  E-value=0.0015  Score=44.04  Aligned_cols=50  Identities=16%  Similarity=0.163  Sum_probs=20.3

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          284 KKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       284 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      .|++++|.++|+++.... +-+...+..+..+|.+.|++++|.++++.+..
T Consensus         4 ~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444444444443331 11333333444444444444444444444444

...

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.16  E-value=0.061  Score=45.54  Aligned_cols=58  Identities=17%  Similarity=0.194  Sum_probs=27.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 012126          208 MRAFCFNGDISIAYTLFNKMFERGVM--PDVESYRILMQGLCRKSQVNRAVDLLEDMLNK  265 (470)
Q Consensus       208 i~~~~~~g~~~~a~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  265 (470)
                      ...+...|++++|.+.|+.+....+.  --....-.++.++.+.|+++.|...++.+.+.
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            33444555566666555555543211  11223334455555555555555555555543

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.14  E-value=0.19  Score=45.65  Aligned_cols=108  Identities=12%  Similarity=0.120  Sum_probs=80.2

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          308 HYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFC  387 (470)
Q Consensus       308 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  387 (470)
                      +.+..|.-+...|+...|.++-.+..    -|+...|...+.+++..++|++..++...   .   -.+.-|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHHHH
Confidence            45556667778888888888877763    27888888899999999999988776542   1   23467888999999


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHH
Q 012126          388 NVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLN  435 (470)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  435 (470)
                      +.|...+|..+...+     +     +..-+..|.+.|++.+|.+..-
T Consensus       249 ~~~~~~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HCCCHHHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHHHH
Confidence            999999988887662     1     2445667788888888876543

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.11  E-value=0.028  Score=42.59  Aligned_cols=22  Identities=23%  Similarity=0.179  Sum_probs=9.6

Q ss_pred             HHHHHHHcCCchhHHHHHHHHH
Q 012126          136 LIKIYAESNLPDRALKTFRSML  157 (470)
Q Consensus       136 li~~~~~~g~~~~A~~~~~~~~  157 (470)
                      +...+...|++++|+.+|++..
T Consensus        44 lastlr~LG~~deA~~~L~~~~   65 (120)
T PF12688_consen   44 LASTLRNLGRYDEALALLEEAL   65 (120)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            3344444444444444444433

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.10  E-value=0.046  Score=47.74  Aligned_cols=99  Identities=15%  Similarity=0.101  Sum_probs=66.5

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhCCCCCCHhhHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKS---QVNRAVDLLEDMLNKGFVPDTLSYTT  276 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~  276 (470)
                      |...|-.|...|...|+.+.|..-|.+..+...+ +...+..+..++....   +..++.++|++++..... |+.+...
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~-~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-NIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-cHHHHHH
Confidence            6777777777777777777777777777665322 5555555555554432   245677777777766544 5666666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          277 LLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       277 ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      |...+...|++.+|...|+.|.+.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhc
Confidence            666677777777777777777766

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.10  E-value=0.0034  Score=41.86  Aligned_cols=50  Identities=16%  Similarity=0.194  Sum_probs=18.6

Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 012126          247 CRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRM  297 (470)
Q Consensus       247 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m  297 (470)
                      ...|++++|+..|+.+++.... +...+..+..++...|++++|...|+++
T Consensus         8 ~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a   57 (65)
T PF13432_consen    8 YQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERA   57 (65)
T ss_dssp             HHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3334444444444443333221 3333333333333344444444444333

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

Probab=97.08  E-value=0.24  Score=45.73  Aligned_cols=145  Identities=13%  Similarity=0.135  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCC-CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHH-HHHH
Q 012126          236 VESYRILMQGLCRKSQVNRAVDLLEDMLNKG-FVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHY-NTVV  313 (470)
Q Consensus       236 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~li  313 (470)
                      ..+|...++.-.+..-++.|..+|-++.+.| +.+++..+++++..++ .|+..-|.++|+--...  -||...| +..+
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            4566677777777777888888888888887 5677788888888776 47778888888765554  2344333 3455


Q ss_pred             HHHHhcCCHhHHHHHHHhchhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 012126          314 LGFCREGRAIDACKVLEDMPSNGCLPN--LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGF  386 (470)
Q Consensus       314 ~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  386 (470)
                      .-+...++-..|..+|+...+. +.-+  ...|..+|.--..-|++..+..+-+.+.+.  .|...+...+...|
T Consensus       474 ~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry  545 (660)
T COG5107         474 LFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRY  545 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHH
Confidence            5666778888888888865443 2223  457777777777778887777777777663  34444444444444

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.08  E-value=0.099  Score=44.28  Aligned_cols=181  Identities=10%  Similarity=0.087  Sum_probs=103.7

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCC--CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHH
Q 012126          238 SYRILMQGLCRKSQVNRAVDLLEDMLNKGFV--PDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDI--VHYNTVV  313 (470)
Q Consensus       238 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~li  313 (470)
                      .+-.....+...|++++|++.|+.+....+.  --....-.++.++.+.|+++.|...+++..+.  -|+.  ..+...+
T Consensus         7 ~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~--yP~~~~~~~A~Y~   84 (203)
T PF13525_consen    7 ALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL--YPNSPKADYALYM   84 (203)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhhHHHH
Confidence            3334556677889999999999999875332  12344556788889999999999999998775  2332  2233333


Q ss_pred             HHHHhcCCHhHHHHHHHhchhCCCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 012126          314 LGFCREGRAIDACKVLEDMPSNGCLP---NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVG  390 (470)
Q Consensus       314 ~~~~~~~~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  390 (470)
                      .+.+..+......     ........   -...+..++.-|=...-..+|...+..+.+. +   ...--.+...|.+.|
T Consensus        85 ~g~~~~~~~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~-l---a~~e~~ia~~Y~~~~  155 (203)
T PF13525_consen   85 LGLSYYKQIPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR-L---AEHELYIARFYYKRG  155 (203)
T ss_dssp             HHHHHHHHHHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH-H---HHHHHHHHHHHHCTT
T ss_pred             HHHHHHHhCccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH-H---HHHHHHHHHHHHHcc
Confidence            3332211111111     00000000   1123445555555566666676666665442 0   111233567799999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHcCCcHHHHH
Q 012126          391 KVDEACGVLEELLKAGEAPHE----DTWVMIVPQICAGEEMEKLG  431 (470)
Q Consensus       391 ~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~a~  431 (470)
                      .+..|..-++.+++.=  |+.    .....++.+|.+.|..+.+.
T Consensus       156 ~y~aA~~r~~~v~~~y--p~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  156 KYKAAIIRFQYVIENY--PDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             -HHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             cHHHHHHHHHHHHHHC--CCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            9999999999998752  332    35677788888888877543

>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=97.06  E-value=0.0032  Score=42.60  Aligned_cols=63  Identities=19%  Similarity=0.261  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHh
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKS-QVNRAVDLLEDMLN  264 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~  264 (470)
                      ...|..+...+...|++++|+..|++.++.+.. +...|..+..++...| ++++|++.+++.++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            344555555555555555555555555554322 4444555555555555 45555555554443

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.98  E-value=0.045  Score=47.81  Aligned_cols=102  Identities=19%  Similarity=0.184  Sum_probs=71.4

Q ss_pred             CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccC-HHHHHHHHHHHHh--cCCChhhHHHHHHHHHHCCCCCCHHH
Q 012126          127 PVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPL-PKQLNRILELLVT--HRNYLRPAFDLFKSAHKHGVLPNTKS  203 (470)
Q Consensus       127 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~ll~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~  203 (470)
                      |.|..-|-.|..+|...|+++.|...|....+.  .|+ ...+..+-..++.  ......++..+|+++.+.+.. |+.+
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL--~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~-~ira  229 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRL--AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-NIRA  229 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-cHHH
Confidence            668888999999999999999999999888762  233 2333333333332  233456788888888876543 6667


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 012126          204 YNIMMRAFCFNGDISIAYTLFNKMFERG  231 (470)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~m~~~~  231 (470)
                      ...|...+...|++.+|...|+.|.+..
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            7777777888888888888888887763

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.95  E-value=0.15  Score=41.15  Aligned_cols=152  Identities=11%  Similarity=0.030  Sum_probs=93.3

Q ss_pred             HHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC
Q 012126           65 VQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESN  144 (470)
Q Consensus        65 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  144 (470)
                      +.....+.=||+..+.-...-...   -|+...-..|..++.+.|+..+|...|.+...--+..+....-.+..+....+
T Consensus        62 ~~~a~~q~ldP~R~~Rea~~~~~~---ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~  138 (251)
T COG4700          62 LLMALQQKLDPERHLREATEELAI---APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQ  138 (251)
T ss_pred             HHHHHHHhcChhHHHHHHHHHHhh---chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhc
Confidence            334444444555444333222211   36777777888889999999999999998887766778888888888888889


Q ss_pred             CchhHHHHHHHHHhCC---CccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHH
Q 012126          145 LPDRALKTFRSMLEFN---CKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAY  221 (470)
Q Consensus       145 ~~~~A~~~~~~~~~~~---~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  221 (470)
                      ++..|...++++.+.+   -.||.   ..++...+...|....|+.-|+.....-  |+...-......+.+.|+.+++.
T Consensus       139 ~~A~a~~tLe~l~e~~pa~r~pd~---~Ll~aR~laa~g~~a~Aesafe~a~~~y--pg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         139 EFAAAQQTLEDLMEYNPAFRSPDG---HLLFARTLAAQGKYADAESAFEVAISYY--PGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             cHHHHHHHHHHHhhcCCccCCCCc---hHHHHHHHHhcCCchhHHHHHHHHHHhC--CCHHHHHHHHHHHHHhcchhHHH
Confidence            9999999998887743   12222   1222222234555666777777666543  33333333334445556555554


Q ss_pred             HHH
Q 012126          222 TLF  224 (470)
Q Consensus       222 ~~~  224 (470)
                      .-+
T Consensus       214 aq~  216 (251)
T COG4700         214 AQY  216 (251)
T ss_pred             HHH
Confidence            333

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.92  E-value=0.017  Score=44.26  Aligned_cols=52  Identities=12%  Similarity=0.156  Sum_probs=40.0

Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHH
Q 012126          371 GFSPHFSVSHALIKGFCNVGKVDEACGVLEELLK-AGEAPHEDTWVMIVPQIC  422 (470)
Q Consensus       371 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~p~~~~~~~l~~~~~  422 (470)
                      ...|+..+..+++.+|+..|++..|.++.+...+ .+++.+..+|..|++-..
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            4567888888888888888888888888888754 467777888888876443

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

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.88  E-value=0.023  Score=49.99  Aligned_cols=85  Identities=20%  Similarity=0.131  Sum_probs=35.6

Q ss_pred             hcCChHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHcCCc
Q 012126          353 DQGMFDVAKKYMQLMISKGFSPH----FSVSHALIKGFCNVGKVDEACGVLEELLKAGE--APHEDTWVMIVPQICAGEE  426 (470)
Q Consensus       353 ~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~  426 (470)
                      +.|++++|...|+.+++..  |+    ...+..+..+|...|++++|...|+.+++.-.  ......+..+...+...|+
T Consensus       155 ~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~  232 (263)
T PRK10803        155 DKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGD  232 (263)
T ss_pred             hcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCC
Confidence            3344444444444444431  11    12333444444445555555555554443210  0112233333444444455


Q ss_pred             HHHHHHHHHHHHH
Q 012126          427 MEKLGEVLNEIVK  439 (470)
Q Consensus       427 ~~~a~~~~~~m~~  439 (470)
                      .++|.++++++++
T Consensus       233 ~~~A~~~~~~vi~  245 (263)
T PRK10803        233 TAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555554443

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

Probab=96.86  E-value=0.38  Score=44.49  Aligned_cols=130  Identities=9%  Similarity=0.060  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHhchhCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          306 IVHYNTVVLGFCREGRAIDACKVLEDMPSNG-CLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIK  384 (470)
Q Consensus       306 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  384 (470)
                      ..+|...++.-.+....+.|..+|-+..+.| +.+++..+++++.-++. |+...|.++|+.-... ++.+....+-.+.
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~  474 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK-FPDSTLYKEKYLL  474 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh-CCCchHHHHHHHH
Confidence            4556677777777777777888888877777 45667777777765554 6677777777755443 2222333345556


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Q 012126          385 GFCNVGKVDEACGVLEELLKAGEAPH--EDTWVMIVPQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       385 ~~~~~g~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~  438 (470)
                      -+...++-+.|..+|+..+++ +..+  ...|..+|.--..-|+...+..+-+.|.
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~  529 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFR  529 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHH
Confidence            666777777777777755443 2222  3467777776666677766665555554

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.75  E-value=0.058  Score=47.47  Aligned_cols=99  Identities=11%  Similarity=-0.024  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC--CCHhhHHHH
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPD--VESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV--PDTLSYTTL  277 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l  277 (470)
                      ..|...+..+.+.|++++|...|+.+++..+.-.  ...+-.+..+|...|++++|...|+.+.+.-..  .....+-.+
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            3455555555566777777777777776533211  245566777777777777777777777654221  122333344


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc
Q 012126          278 LNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       278 l~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      ..++...|+.++|..+|+.+.+.
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            55566677777777777777665

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.71  E-value=0.72  Score=45.55  Aligned_cols=312  Identities=13%  Similarity=0.119  Sum_probs=163.5

Q ss_pred             HHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCc--hhHHHHHHHHHhCCCccCHHHHHHHHHHHHh
Q 012126          100 ILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLP--DRALKTFRSMLEFNCKPLPKQLNRILELLVT  177 (470)
Q Consensus       100 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~--~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~  177 (470)
                      .+|..+...+.+..|+++-..+...-.. ...+|......+.+..+.  +++++..++=......|. .+|..+-...+ 
T Consensus       442 ~vi~Rl~~r~~Y~vaIQva~~l~~p~~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~~~-iSy~~iA~~Ay-  518 (829)
T KOG2280|consen  442 VVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLTPG-ISYAAIARRAY-  518 (829)
T ss_pred             hhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhcccCCCc-eeHHHHHHHHH-
Confidence            3456667777788888777766433211 245666666666665332  233333332222112232 23333333333 


Q ss_pred             cCCChhhHHHHHHHHHHCCCC----CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCC-----------CCCCHHHHHHH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVL----PNTKSYNIMMRAFCFNGDISIAYTLFNKMFERG-----------VMPDVESYRIL  242 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----------~~p~~~~~~~l  242 (470)
                      ..|+.+.|..+++.=...+..    .+..-+...+.-+.+.|+.+....++-.+..+-           .+.....|.-+
T Consensus       519 ~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~~~  598 (829)
T KOG2280|consen  519 QEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYRQF  598 (829)
T ss_pred             hcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHH
Confidence            455567776666533222111    122234455556666777777666665554331           01111111111


Q ss_pred             HH--------HHHHcCChHHHHHHHH--HHHh----CCCCCCHhhHHHHHHHHHhcCCHH----------HHHHHHHHHH
Q 012126          243 MQ--------GLCRKSQVNRAVDLLE--DMLN----KGFVPDTLSYTTLLNSLCRKKKLR----------EAYKLLCRMK  298 (470)
Q Consensus       243 l~--------~~~~~~~~~~a~~~~~--~~~~----~~~~~~~~~~~~ll~~~~~~~~~~----------~a~~~~~~m~  298 (470)
                      ++        .+...++-.++..-|.  ....    .|..|+   .....+.+.+.....          +-+.+.+.+.
T Consensus       599 ~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~---lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le  675 (829)
T KOG2280|consen  599 MRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPA---LKTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLE  675 (829)
T ss_pred             HHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchh---HHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            11        0111111111111111  0000    111122   222333444433311          1112222222


Q ss_pred             H-cCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH
Q 012126          299 V-KGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFS  377 (470)
Q Consensus       299 ~-~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  377 (470)
                      . .|..-..-+.+--+.-+...|+-.+|.++-.+.+-    ||...|-.=+.+++..+++++.+++-+....      +.
T Consensus       676 ~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fki----pdKr~~wLk~~aLa~~~kweeLekfAkskks------PI  745 (829)
T KOG2280|consen  676 DQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKI----PDKRLWWLKLTALADIKKWEELEKFAKSKKS------PI  745 (829)
T ss_pred             HHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCC----cchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CC
Confidence            1 22223334455556667788999999998887753    7888888889999999999988777665432      45


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHH
Q 012126          378 VSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNE  436 (470)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  436 (470)
                      -|..++.+|.+.|+.++|.+++-+.-.     .    .-...+|.+.|++.+|.++.-+
T Consensus       746 Gy~PFVe~c~~~~n~~EA~KYiprv~~-----l----~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  746 GYLPFVEACLKQGNKDEAKKYIPRVGG-----L----QEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             CchhHHHHHHhcccHHHHhhhhhccCC-----h----HHHHHHHHHhccHHHHHHHHHH
Confidence            678889999999999999998865422     1    1566778888888888776544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.68  E-value=0.0098  Score=40.70  Aligned_cols=56  Identities=14%  Similarity=0.125  Sum_probs=40.1

Q ss_pred             HHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhC
Q 012126          103 LKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEF  159 (470)
Q Consensus       103 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  159 (470)
                      ..+.+.++++.|.++++.+...+ |.++..+.....++.+.|++++|.+.|+...+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            34666777777777777777665 556667777777777777777777777777763

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.63  E-value=0.54  Score=43.08  Aligned_cols=163  Identities=12%  Similarity=0.105  Sum_probs=100.1

Q ss_pred             CCHHHHHHH-HHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH--HHHHcCChHHHHHHHHHHHhCCCCCCHhhHH
Q 012126          199 PNTKSYNIM-MRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQ--GLCRKSQVNRAVDLLEDMLNKGFVPDTLSYT  275 (470)
Q Consensus       199 ~~~~~~~~l-i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  275 (470)
                      |...+|-.+ ..++.-.|++++|.++--...+...   ...+...++  ++.-.++.+.++..|++.+..++  +...-.
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~---~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldp--dh~~sk  240 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDA---TNAEALYVRGLCLYYNDNADKAINHFQQALRLDP--DHQKSK  240 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhccc---chhHHHHhcccccccccchHHHHHHHhhhhccCh--hhhhHH
Confidence            334444444 3556677888888877776666542   223333333  34456778888888888776543  322211


Q ss_pred             ---HH----------HHHHHhcCCHHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCC
Q 012126          276 ---TL----------LNSLCRKKKLREAYKLLCRMKVK---GCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLP  339 (470)
Q Consensus       276 ---~l----------l~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  339 (470)
                         ..          .+-..+.|++..|.+.+.+.+..   +.+++...|........+.|+.++|+.--++..+.    
T Consensus       241 ~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i----  316 (486)
T KOG0550|consen  241 SASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI----  316 (486)
T ss_pred             hHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc----
Confidence               11          22345678888888888887654   34445555666666777888888888877776653    


Q ss_pred             CHH---HHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 012126          340 NLV---SYRTLVGGLCDQGMFDVAKKYMQLMISK  370 (470)
Q Consensus       340 ~~~---~~~~li~~~~~~g~~~~a~~~~~~~~~~  370 (470)
                      |..   .|..-..++...++|++|.+-++...+.
T Consensus       317 D~syikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  317 DSSYIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            332   2222234555677888888888887765

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.63  E-value=0.0064  Score=42.32  Aligned_cols=63  Identities=19%  Similarity=0.244  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHC----CCC-CC-HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          377 SVSHALIKGFCNVGKVDEACGVLEELLKA----GEA-PH-EDTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       377 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-p~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      .+|+.+...|...|++++|+..|++.++.    |-. |+ ..++..+..++...|++++|++++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            35566666666777777777776665432    111 11 33566666677777777777777776653

...

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.62  E-value=0.016  Score=46.13  Aligned_cols=67  Identities=21%  Similarity=0.297  Sum_probs=31.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH-----HCCCCCCHHH
Q 012126          346 TLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELL-----KAGEAPHEDT  413 (470)
Q Consensus       346 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-----~~~~~p~~~~  413 (470)
                      .++..+...|++++|..+...+.... +-+...|..+|.+|...|+..+|.++|+++.     +.|+.|+..+
T Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   67 RLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            34444555555666666555555542 3345555555666666666666655555543     2255555443

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK15331 chaperone protein SicA; Provisional

Probab=96.60  E-value=0.076  Score=42.20  Aligned_cols=87  Identities=13%  Similarity=-0.056  Sum_probs=44.9

Q ss_pred             HHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHH
Q 012126          316 FCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEA  395 (470)
Q Consensus       316 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  395 (470)
                      +...|++++|..+|.-+.-.+. -+..-|..|..++-..+++++|...|......+. -|+..+-....+|...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHH
Confidence            3455666666666665544322 1333344445555555666666666655544321 2333334445555566666666


Q ss_pred             HHHHHHHHH
Q 012126          396 CGVLEELLK  404 (470)
Q Consensus       396 ~~~~~~~~~  404 (470)
                      ...|+..++
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            666665554

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.57  E-value=0.012  Score=40.34  Aligned_cols=54  Identities=19%  Similarity=0.198  Sum_probs=26.4

Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          385 GFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       385 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      .|.+.+++++|.++++.++..+.. +...|.....++.+.|++++|.+.++..++
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            344455555555555555543321 333444444555555555555555555553

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.56  E-value=0.42  Score=40.95  Aligned_cols=158  Identities=12%  Similarity=0.045  Sum_probs=112.8

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 012126          215 GDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLL  294 (470)
Q Consensus       215 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  294 (470)
                      ...+...++|++-.       ..+.+.++.++.-.|.+.-...++.+..+...+.++.....|.++-.+.||.+.|...|
T Consensus       163 ~~~ESsv~lW~KRl-------~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf  235 (366)
T KOG2796|consen  163 LAEESSIRLWRKRL-------GRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYF  235 (366)
T ss_pred             cchhhHHHHHHHHH-------HHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHH
Confidence            33456666666533       24556778888888889999999999998877778888899999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHH-----HHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          295 CRMKVKGCNPDIVHYNTVV-----LGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       295 ~~m~~~~~~~~~~~~~~li-----~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      ++..+..-+.+..+++.++     ..|.-.+++.+|...+.++...+- -|....|.-.-+..-.|+...|.+.++.|..
T Consensus       236 ~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~~e~~~~  314 (366)
T KOG2796|consen  236 QDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQLEAMVQ  314 (366)
T ss_pred             HHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9887654444444444443     346667889999999988877542 2444444433344556899999999999988


Q ss_pred             CCCCCCHHHHHHH
Q 012126          370 KGFSPHFSVSHAL  382 (470)
Q Consensus       370 ~~~~~~~~~~~~l  382 (470)
                      .  .|...+-+++
T Consensus       315 ~--~P~~~l~es~  325 (366)
T KOG2796|consen  315 Q--DPRHYLHESV  325 (366)
T ss_pred             c--CCccchhhhH
Confidence            5  4554444433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.55  E-value=0.035  Score=50.33  Aligned_cols=132  Identities=11%  Similarity=-0.005  Sum_probs=72.2

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHH----hCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH----cCC-CCCHH
Q 012126          238 SYRILMQGLCRKSQVNRAVDLLEDML----NKGFV-PDTLSYTTLLNSLCRKKKLREAYKLLCRMKV----KGC-NPDIV  307 (470)
Q Consensus       238 ~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~~~-~~~~~  307 (470)
                      .|..|.+.|.-.|+++.|+...+.-+    +-|-. ....++..+.+++.-.|+++.|.+.|+.-..    .|- .....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            45555555666677777776655432    22211 1234566666777777777777776665422    111 12233


Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHhchh----CC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          308 HYNTVVLGFCREGRAIDACKVLEDMPS----NG-CLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       308 ~~~~li~~~~~~~~~~~a~~~~~~m~~----~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      +..+|.+.|.-..++.+|+.++.+-..    .+ ..-....+-+|..+|...|..++|+.+.+..++
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            445566666666666777666654221    00 111344566677777777777777776655443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.52  E-value=0.018  Score=52.03  Aligned_cols=266  Identities=17%  Similarity=0.064  Sum_probs=156.8

Q ss_pred             cCCChhhHHHHHHHHHHCCCCCCHH----HHHHHHHHHHhcCChhHHHHHHHH--HHHC--CCCC-CHHHHHHHHHHHHH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVLPNTK----SYNIMMRAFCFNGDISIAYTLFNK--MFER--GVMP-DVESYRILMQGLCR  248 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~li~~~~~~g~~~~a~~~~~~--m~~~--~~~p-~~~~~~~ll~~~~~  248 (470)
                      ..|+.+....+|+..++.|.. |..    .|.-|..+|.-.+++++|+++...  ...+  |-+. ....-..|.+.+--
T Consensus        29 k~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtlKv  107 (639)
T KOG1130|consen   29 KMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTLKV  107 (639)
T ss_pred             hccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchhhh
Confidence            556689999999999988854 443    466677788888899999887643  1111  1000 11122223334444


Q ss_pred             cCChHHHHHHHHHH----HhCCC-CCCHhhHHHHHHHHHhcCC--------------------HHHHHHHHHHHHH----
Q 012126          249 KSQVNRAVDLLEDM----LNKGF-VPDTLSYTTLLNSLCRKKK--------------------LREAYKLLCRMKV----  299 (470)
Q Consensus       249 ~~~~~~a~~~~~~~----~~~~~-~~~~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~m~~----  299 (470)
                      .|.+++|+-.-.+-    .+.|- .....++-.+...|...|+                    ++.|.+.|.+=.+    
T Consensus       108 ~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~~~  187 (639)
T KOG1130|consen  108 KGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELSEK  187 (639)
T ss_pred             hcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56666665432221    12221 1123344456666654442                    3344444443221    


Q ss_pred             cCC-CCCHHHHHHHHHHHHhcCCHhHHHHHHHhc----hhCCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHH----
Q 012126          300 KGC-NPDIVHYNTVVLGFCREGRAIDACKVLEDM----PSNGCL-PNLVSYRTLVGGLCDQGMFDVAKKYMQLMIS----  369 (470)
Q Consensus       300 ~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m----~~~~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----  369 (470)
                      .|- -.....|..|.+.|.-.|+++.|+...+.=    .+-|-+ .....+..+..++.-.|+++.|.+.|+....    
T Consensus       188 lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAie  267 (639)
T KOG1130|consen  188 LGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIE  267 (639)
T ss_pred             hhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHH
Confidence            110 011234555666666778899888765542    222211 1234667788888889999999998876543    


Q ss_pred             CCC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcccc
Q 012126          370 KGF-SPHFSVSHALIKGFCNVGKVDEACGVLEELLKA-----GEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIK  443 (470)
Q Consensus       370 ~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  443 (470)
                      .|- ........+|...|.-...+++|+.++.+-+.-     +..-....+.+|..+|...|..++|+.+.+.-++....
T Consensus       268 lg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~s~e  347 (639)
T KOG1130|consen  268 LGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRSSLE  347 (639)
T ss_pred             hcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence            221 223345567778888888899999888764321     11224568889999999999999999988877665444


Q ss_pred             C
Q 012126          444 G  444 (470)
Q Consensus       444 p  444 (470)
                      .
T Consensus       348 v  348 (639)
T KOG1130|consen  348 V  348 (639)
T ss_pred             h
Confidence            3

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.52  E-value=0.056  Score=41.40  Aligned_cols=99  Identities=14%  Similarity=0.039  Sum_probs=64.0

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHH
Q 012126          270 DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVG  349 (470)
Q Consensus       270 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  349 (470)
                      |..++..+|.++++.|+++....+++..-.-  ..+..         ...+.         --......|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI--~~~~~---------~~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGI--DVNGK---------KKEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCC--CCCCc---------cccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            3456666666777777766666666544322  11110         00000         1123346788999999999


Q ss_pred             HHHhcCChHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHc
Q 012126          350 GLCDQGMFDVAKKYMQLMIS-KGFSPHFSVSHALIKGFCN  388 (470)
Q Consensus       350 ~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~  388 (470)
                      +|+..|++..|.++++...+ -+++.+..+|..|+.-...
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            99999999999999988876 4677778888888865443

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=96.49  E-value=0.025  Score=45.07  Aligned_cols=98  Identities=18%  Similarity=0.193  Sum_probs=61.4

Q ss_pred             HhcCCChHHHHHHHHHhhcC--CCCCCCH------------------HHHHHHHHHHHccCCchHHHHHHHHHhhCCCCC
Q 012126           69 IASQSDPLLAKEIFDYASRQ--PNFRHSN------------------STYLILILKLGRAKYFSLIDDILITLKSEHYPV  128 (470)
Q Consensus        69 ~~~~~~~~~a~~~~~~~~~~--~~~~~~~------------------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  128 (470)
                      ....+++..+.+.++.+...  +.+-++.                  .....++..+...|+++.|..+...+.... |.
T Consensus        16 ~~~~~~~~~~~~~~~~al~ly~G~~l~~~~~~~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~   94 (146)
T PF03704_consen   16 AARAGDPEEAIELLEEALALYRGDFLPDLDDEEWVEPERERLRELYLDALERLAEALLEAGDYEEALRLLQRALALD-PY   94 (146)
T ss_dssp             HHHTT-HHHHHHHHHHHHTT--SSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT
T ss_pred             HHHCCCHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CC
Confidence            34567888888877776542  1121110                  123444555667888888888888888776 77


Q ss_pred             CHHHHHHHHHHHHHcCCchhHHHHHHHHHh-----CCCccCHHH
Q 012126          129 TPSLFTYLIKIYAESNLPDRALKTFRSMLE-----FNCKPLPKQ  167 (470)
Q Consensus       129 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~p~~~~  167 (470)
                      +...|..+|.+|...|+...|++.|+.+..     .|+.|+..+
T Consensus        95 ~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   95 DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             -HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            888888888888888888888888887643     466665544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK15331 chaperone protein SicA; Provisional

Probab=96.32  E-value=0.23  Score=39.58  Aligned_cols=92  Identities=15%  Similarity=-0.008  Sum_probs=66.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC
Q 012126          207 MMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKK  286 (470)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  286 (470)
                      ...-+-..|++++|..+|+-+.-.+.- +..-|..|..++-..+++++|+..|......+.. |...+-....+|...|+
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCC
Confidence            334445778888888888887766544 5555667777777888888888888877665543 44445556778888888


Q ss_pred             HHHHHHHHHHHHHc
Q 012126          287 LREAYKLLCRMKVK  300 (470)
Q Consensus       287 ~~~a~~~~~~m~~~  300 (470)
                      .+.|...|+...+.
T Consensus       121 ~~~A~~~f~~a~~~  134 (165)
T PRK15331        121 AAKARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHHHhC
Confidence            88888888887763

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.31  E-value=0.98  Score=43.89  Aligned_cols=88  Identities=11%  Similarity=0.055  Sum_probs=53.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHH---------
Q 012126          272 LSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLV---------  342 (470)
Q Consensus       272 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~---------  342 (470)
                      .+...+...+.+...+..|-++|..|-+.         ..+++.....+++++|+.+-+...+.  .||+.         
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE  816 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAE  816 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhh
Confidence            34444444455566677777777776532         24566677778888888777766552  33322         


Q ss_pred             --HHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 012126          343 --SYRTLVGGLCDQGMFDVAKKYMQLMISK  370 (470)
Q Consensus       343 --~~~~li~~~~~~g~~~~a~~~~~~~~~~  370 (470)
                        -|...-.+|.+.|+-.+|..+++++...
T Consensus       817 ~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  817 NDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence              1233335667777777777777776543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.19  E-value=1  Score=41.54  Aligned_cols=169  Identities=15%  Similarity=0.041  Sum_probs=93.1

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC---CCCCHhhHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCCCHHH
Q 012126          235 DVESYRILMQGLCRKSQVNRAVDLLEDMLNKG---FVPDTLSYTTLLNSLCR---KKKLREAYKLLCRMKVKGCNPDIVH  308 (470)
Q Consensus       235 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~---~~~~~~a~~~~~~m~~~~~~~~~~~  308 (470)
                      +..+...++-+|....+++..+++.+.+....   +.-....--...-++.+   .|+.++|++++..+......++..+
T Consensus       140 s~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~  219 (374)
T PF13281_consen  140 SPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDT  219 (374)
T ss_pred             ChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHH
Confidence            34444456667889999999999999987652   11122222233445556   7899999999998666666778888


Q ss_pred             HHHHHHHHHh----c-----CCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCC-h---HHHHHHHH----HHHHCC
Q 012126          309 YNTVVLGFCR----E-----GRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGM-F---DVAKKYMQ----LMISKG  371 (470)
Q Consensus       309 ~~~li~~~~~----~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~-~---~~a~~~~~----~~~~~~  371 (470)
                      |..+.+.|-.    .     ...++|+..|.+.-+.  .||...--.++..+.-.|. .   .+..++--    .+.++|
T Consensus       220 ~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg  297 (374)
T PF13281_consen  220 LGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKG  297 (374)
T ss_pred             HHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhc
Confidence            8888777632    1     2255666666655443  2443221111222222222 1   12233321    111222


Q ss_pred             CC---CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          372 FS---PHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       372 ~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      ..   .+--.+..++.++.-.|+.++|.+..++|.+.
T Consensus       298 ~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  298 SLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            21   22233445566666666666666666666654

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.19  E-value=0.016  Score=40.22  Aligned_cols=63  Identities=21%  Similarity=0.307  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHC----CC-CCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          342 VSYRTLVGGLCDQGMFDVAKKYMQLMISK----GF-SPH-FSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       342 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      .+|+.+...|...|++++|+..+++.++.    |- .|+ ..+++.+..+|...|++++|++++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34556666666666666666666665542    11 111 34566666777777777777777776543

...

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.97  E-value=2.6  Score=44.23  Aligned_cols=100  Identities=17%  Similarity=0.158  Sum_probs=54.4

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHH--HHHHHHHHHhcCChHHH
Q 012126          283 RKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVS--YRTLVGGLCDQGMFDVA  360 (470)
Q Consensus       283 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~--~~~li~~~~~~g~~~~a  360 (470)
                      ....+++|.-.|+..-+.         .-.+.+|..+|++.+|+.+..++...   -+...  -..|+.-+...++.-+|
T Consensus       951 ~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eA 1018 (1265)
T KOG1920|consen  951 EELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEA 1018 (1265)
T ss_pred             HhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhH
Confidence            345555555555543221         12455666667777776666665432   12221  14456666667777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 012126          361 KKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEEL  402 (470)
Q Consensus       361 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  402 (470)
                      -++..+....   |     .-.+..|++...+++|..+....
T Consensus      1019 a~il~e~~sd---~-----~~av~ll~ka~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen 1019 AKILLEYLSD---P-----EEAVALLCKAKEWEEALRVASKA 1052 (1265)
T ss_pred             HHHHHHHhcC---H-----HHHHHHHhhHhHHHHHHHHHHhc
Confidence            7776665442   1     22334456666777777665544

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

Probab=95.96  E-value=0.083  Score=45.53  Aligned_cols=88  Identities=18%  Similarity=0.182  Sum_probs=52.4

Q ss_pred             CCCHHHHHHHHHHHHhc-----CCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcC----------------ChHHHH
Q 012126          303 NPDIVHYNTVVLGFCRE-----GRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQG----------------MFDVAK  361 (470)
Q Consensus       303 ~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g----------------~~~~a~  361 (470)
                      +-|..+|-+.+..|...     +.++=....++.|.+.|+.-|..+|+.|+..+-+..                +-+.++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            44667777777766543     445555666677777777778888887777654321                123445


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 012126          362 KYMQLMISKGFSPHFSVSHALIKGFCNVG  390 (470)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g  390 (470)
                      +++++|...|+.||..+-..|+.+|.+.|
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~  172 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWN  172 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhcccc
Confidence            55555555555555555555555555444

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.86  E-value=0.42  Score=45.64  Aligned_cols=158  Identities=13%  Similarity=0.119  Sum_probs=87.5

Q ss_pred             HHHHhcCChhHHHHHHHHH-HHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCH
Q 012126          209 RAFCFNGDISIAYTLFNKM-FERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKL  287 (470)
Q Consensus       209 ~~~~~~g~~~~a~~~~~~m-~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  287 (470)
                      +...-.|+++.+.++.+.- .-..+  +..-.+.++..+.+.|..+.|+++-.+-.            .-.+...++|++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L  334 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNI--PKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNL  334 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-H
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccC--ChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCH
Confidence            3344567777766655411 11111  24446667777777777777776553311            123445567777


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 012126          288 REAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLM  367 (470)
Q Consensus       288 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  367 (470)
                      +.|.++-++..      +...|..|.....+.|+++-|.+.|.+..+         |..|+-.|.-.|+.+...++.+..
T Consensus       335 ~~A~~~a~~~~------~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a  399 (443)
T PF04053_consen  335 DIALEIAKELD------DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIA  399 (443)
T ss_dssp             HHHHHHCCCCS------THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhcC------cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHH
Confidence            77776654432      566777777777777888877777777654         445555666777777777777666


Q ss_pred             HHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 012126          368 ISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEE  401 (470)
Q Consensus       368 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  401 (470)
                      ...|-      ++....++...|++++..+++.+
T Consensus       400 ~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  400 EERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            66541      34444555556777777766654

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.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.83  E-value=1.7  Score=41.10  Aligned_cols=58  Identities=12%  Similarity=0.063  Sum_probs=31.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 012126          206 IMMRAFCFNGDISIAYTLFNKMFERGVMP-DVESYRILMQGLCRKSQVNRAVDLLEDML  263 (470)
Q Consensus       206 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  263 (470)
                      .+..++.+.|+.++|.+.|++|.+..... .......|+.++...+.+.++..++.+..
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            34444455566666666666665442221 22344556666666666666666666543

The molecular function of this protein is uncertain.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.81  E-value=1.5  Score=40.09  Aligned_cols=307  Identities=19%  Similarity=0.109  Sum_probs=173.7

Q ss_pred             hHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHH--ccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHH--HHcCCchhHH
Q 012126           75 PLLAKEIFDYASRQPNFRHSNSTYLILILKLG--RAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIY--AESNLPDRAL  150 (470)
Q Consensus        75 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~--~~~g~~~~A~  150 (470)
                      +..+...|+.-.+..+       |..|-..++  -.|+-..|.++-.+..+. +..|......|+.+-  .-.|+.+.|.
T Consensus        69 P~t~~Ryfr~rKRdrg-------yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar  140 (531)
T COG3898          69 PYTARRYFRERKRDRG-------YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDAR  140 (531)
T ss_pred             cHHHHHHHHHHHhhhH-------HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHH
Confidence            4445555554443333       444444333  357777777776654322 122333344444433  3469999999


Q ss_pred             HHHHHHHhCCCccCHHHHHHHHHHHH---hcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 012126          151 KTFRSMLEFNCKPLPKQLNRILELLV---THRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKM  227 (470)
Q Consensus       151 ~~~~~~~~~~~~p~~~~~~~ll~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  227 (470)
                      +-|+.|..     |+.+-..=|..++   +..|..+.|..+-+..-..-.. -...+..++...|..|+++.|+++++.-
T Consensus       141 ~kfeAMl~-----dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~  214 (531)
T COG3898         141 KKFEAMLD-----DPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQ  214 (531)
T ss_pred             HHHHHHhc-----ChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHH
Confidence            99999886     3333322233322   3556667777776666554322 3466778888888999999999988876


Q ss_pred             HHCC-CCCCHHH--HHHHHHHHH---HcCChHHHHHHHHHHHhCCCCCCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          228 FERG-VMPDVES--YRILMQGLC---RKSQVNRAVDLLEDMLNKGFVPDTL-SYTTLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       228 ~~~~-~~p~~~~--~~~ll~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      .... +.+++.-  -..|+.+-.   -.-+...|...-.+..+.  .||-. .-.....++.+.|+..++-.+++.+-+.
T Consensus       215 ~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~  292 (531)
T COG3898         215 RAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKA  292 (531)
T ss_pred             HHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhc
Confidence            5432 2333221  122332211   123455555555554443  33322 1223346677888888888888888877


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhC-CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 012126          301 GCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSN-GCLP-NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSV  378 (470)
Q Consensus       301 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  378 (470)
                        .|.+..+...  .+.+.|+  .++.-++..... .++| +......+..+-...|++..|..--+...+  ..|....
T Consensus       293 --ePHP~ia~lY--~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~  364 (531)
T COG3898         293 --EPHPDIALLY--VRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESA  364 (531)
T ss_pred             --CCChHHHHHH--HHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhH
Confidence              4444433222  2334444  333333322211 1233 455666677777788888877776666655  3677777


Q ss_pred             HHHHHHHHH-ccCCHHHHHHHHHHHHHC
Q 012126          379 SHALIKGFC-NVGKVDEACGVLEELLKA  405 (470)
Q Consensus       379 ~~~li~~~~-~~g~~~~a~~~~~~~~~~  405 (470)
                      |..|.+.-. ..|+-.++...+.+.++.
T Consensus       365 ~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         365 YLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             HHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            777766544 348888888888777764

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

Probab=95.80  E-value=0.21  Score=43.20  Aligned_cols=46  Identities=28%  Similarity=0.286  Sum_probs=33.2

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh-HHHHHHHHHHH
Q 012126          218 SIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQV-NRAVDLLEDML  263 (470)
Q Consensus       218 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~  263 (470)
                      +-+++++++|...|+.||-.+-..+++++.+.+-. .+..++.-.|.
T Consensus       140 ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  140 NCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             hHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            45688889999999999999988899888877653 33444444443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.77  E-value=1.6  Score=40.19  Aligned_cols=258  Identities=12%  Similarity=-0.028  Sum_probs=149.1

Q ss_pred             HhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhC--CC-----CCC--HHHHHHHHHH
Q 012126           69 IASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSE--HY-----PVT--PSLFTYLIKI  139 (470)
Q Consensus        69 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~-----~~~--~~~~~~li~~  139 (470)
                      +-++.++..|+..+..+....  +.+..-|..-...+.-.++|+++.--.+.-.+.  |+     .++  -.....+|.+
T Consensus        59 ~yk~k~Y~nal~~yt~Ai~~~--pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~~~k~~~r~~~c~~a~~~~i~A  136 (486)
T KOG0550|consen   59 FYKQKTYGNALKNYTFAIDMC--PDNASYYSNRAATLMMLGRFEEALGDARQSVRLKDGFSKGQLREGQCHLALSDLIEA  136 (486)
T ss_pred             HHHHhhHHHHHHHHHHHHHhC--ccchhhhchhHHHHHHHHhHhhcccchhhheecCCCccccccchhhhhhhhHHHHHH
Confidence            344567778888888776543  233444444444455555565555443333222  11     000  0111123333


Q ss_pred             HHHcCC-----chhHHHHHHHHHhCC-CccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 012126          140 YAESNL-----PDRALKTFRSMLEFN-CKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCF  213 (470)
Q Consensus       140 ~~~~g~-----~~~A~~~~~~~~~~~-~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  213 (470)
                      .....+     ...|+..++.+.... -.|.-..+..+-..|+...+++++|.++-...++.+.. +......=..++--
T Consensus       137 ~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~~-n~~al~vrg~~~yy  215 (486)
T KOG0550|consen  137 EEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDAT-NAEALYVRGLCLYY  215 (486)
T ss_pred             HHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcccc-hhHHHHhccccccc
Confidence            222211     112222233322222 23444566666666777788899999888888876422 33222222234446


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHH-------------HHHHHHHHHHcCChHHHHHHHHHHHhCC---CCCCHhhHHHH
Q 012126          214 NGDISIAYTLFNKMFERGVMPDVES-------------YRILMQGLCRKSQVNRAVDLLEDMLNKG---FVPDTLSYTTL  277 (470)
Q Consensus       214 ~g~~~~a~~~~~~m~~~~~~p~~~~-------------~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l  277 (470)
                      .++.+.+...|++.+..++  +...             +..=.+-..+.|++..|.+.|.+.+...   ..++...|...
T Consensus       216 ~~~~~ka~~hf~qal~ldp--dh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nr  293 (486)
T KOG0550|consen  216 NDNADKAINHFQQALRLDP--DHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNR  293 (486)
T ss_pred             ccchHHHHHHHhhhhccCh--hhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHh
Confidence            7888999999988876642  3222             1122334567899999999999988653   45566677777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHH-HH--HHHHHHHhcCCHhHHHHHHHhchhC
Q 012126          278 LNSLCRKKKLREAYKLLCRMKVKGCNPDIVH-YN--TVVLGFCREGRAIDACKVLEDMPSN  335 (470)
Q Consensus       278 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~--~li~~~~~~~~~~~a~~~~~~m~~~  335 (470)
                      ..+..+.|+.++|+.--++..+.    |..- ..  .-..++...+++++|.+-++...+.
T Consensus       294 a~v~~rLgrl~eaisdc~~Al~i----D~syikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  294 ALVNIRLGRLREAISDCNEALKI----DSSYIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HhhhcccCCchhhhhhhhhhhhc----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            77888999999999988888765    3322 22  2233455667888888888887664

>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=95.77  E-value=0.61  Score=35.43  Aligned_cols=59  Identities=19%  Similarity=0.192  Sum_probs=23.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAG  406 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  406 (470)
                      .+......|.-+...+++.++.+.+ .+++...-.+..+|.+.|+..++.+++.+.-+.|
T Consensus        92 ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   92 ALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            3444444444444444444444321 3344444444444444444444444444444444

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.75  E-value=0.73  Score=36.22  Aligned_cols=36  Identities=14%  Similarity=0.198  Sum_probs=14.0

Q ss_pred             HHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 012126          246 LCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLC  282 (470)
Q Consensus       246 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  282 (470)
                      +...+.......+++.+...+. .+....+.++..|+
T Consensus        17 ~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~   52 (140)
T smart00299       17 FEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYA   52 (140)
T ss_pred             HHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHH
Confidence            3333344444444444433332 23333444444443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.72  E-value=0.18  Score=47.07  Aligned_cols=63  Identities=16%  Similarity=0.092  Sum_probs=38.5

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          270 DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDI----VHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       270 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      +...++.+..+|.+.|++++|+..|++.++.  .|+.    .+|..+..+|...|+.++|+..+++..+
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455666666666666666666666666554  3442    2356666666666666666666666655

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.69  E-value=1.6  Score=39.78  Aligned_cols=289  Identities=16%  Similarity=0.112  Sum_probs=181.3

Q ss_pred             HcCCchhHHHHHHHHHhCCCccCHHHHHHHHHH-HHhcCCChhhHHHHHHHHHHCCCCCCHHH--HHHHHHHHHhcCChh
Q 012126          142 ESNLPDRALKTFRSMLEFNCKPLPKQLNRILEL-LVTHRNYLRPAFDLFKSAHKHGVLPNTKS--YNIMMRAFCFNGDIS  218 (470)
Q Consensus       142 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~li~~~~~~g~~~  218 (470)
                      -.|+-..|.++-.+.... +..|...+..+|.+ .....|+++.|.+-|+.|...   |....  ...|.-.--+.|..+
T Consensus        96 gAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~Gare  171 (531)
T COG3898          96 GAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGARE  171 (531)
T ss_pred             ccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHH
Confidence            356777777766554321 22344444444443 233567899999999999863   32221  122222334678889


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC-CCCCHh--hHHHHHHHHHh---cCCHHHHHH
Q 012126          219 IAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKG-FVPDTL--SYTTLLNSLCR---KKKLREAYK  292 (470)
Q Consensus       219 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~--~~~~ll~~~~~---~~~~~~a~~  292 (470)
                      .|..+-++.-+.-.. -...+...+...+..|+++.|+++++.-.... +.++..  .-..|+.+-..   ..+...|..
T Consensus       172 aAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~  250 (531)
T COG3898         172 AARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARD  250 (531)
T ss_pred             HHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHH
Confidence            998888887665433 34566788899999999999999998766543 233332  22233332221   234556666


Q ss_pred             HHHHHHHcCCCCCHHHHH-HHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-
Q 012126          293 LLCRMKVKGCNPDIVHYN-TVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK-  370 (470)
Q Consensus       293 ~~~~m~~~~~~~~~~~~~-~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-  370 (470)
                      .-.+..+.  .|+.+--. .-..++.+.|+..++-.+++.+-+....|+  .+.  +..+.+.|+  .+..-++...+. 
T Consensus       251 ~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~--ia~--lY~~ar~gd--ta~dRlkRa~~L~  322 (531)
T COG3898         251 DALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD--IAL--LYVRARSGD--TALDRLKRAKKLE  322 (531)
T ss_pred             HHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH--HHH--HHHHhcCCC--cHHHHHHHHHHHH
Confidence            55555443  55543322 234678999999999999999988754454  222  222344454  444444444331 


Q ss_pred             CCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-CCcHHHHHHHHHHHHHccccCC
Q 012126          371 GFSPH-FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICA-GEEMEKLGEVLNEIVKVEIKGD  445 (470)
Q Consensus       371 ~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~~a~~~~~~m~~~~~~p~  445 (470)
                      .++|| ......+..+-...|++..|..--+...+  ..|....|..|.+.-.. .||-.++...+.+.++.--.|+
T Consensus       323 slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdPa  397 (531)
T COG3898         323 SLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDPA  397 (531)
T ss_pred             hcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCCc
Confidence            23444 44556667777888999988887777766  45888899888876654 4999999999999987644443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.67  E-value=0.76  Score=44.53  Aligned_cols=177  Identities=15%  Similarity=0.097  Sum_probs=115.7

Q ss_pred             HHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCH------HHHHHHHHHHHhc---CCChhhHHH
Q 012126          117 ILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLP------KQLNRILELLVTH---RNYLRPAFD  187 (470)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~------~~~~~ll~~~~~~---~~~~~~a~~  187 (470)
                      +|..+... +||.   +..++....=.|+-+.+++.+.+..+.+-.-.+      -.|+..+..++..   ....+.|.+
T Consensus       179 ~f~L~lSl-LPp~---~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~  254 (468)
T PF10300_consen  179 LFNLVLSL-LPPK---VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEE  254 (468)
T ss_pred             HHHHHHHh-CCHH---HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHH
Confidence            45555443 3433   566777777778888888888776553211111      2234444444433   556889999


Q ss_pred             HHHHHHHCCCCCCHHHHHHH-HHHHHhcCChhHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 012126          188 LFKSAHKHGVLPNTKSYNIM-MRAFCFNGDISIAYTLFNKMFERG---VMPDVESYRILMQGLCRKSQVNRAVDLLEDML  263 (470)
Q Consensus       188 ~~~~~~~~~~~~~~~~~~~l-i~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  263 (470)
                      +++.+.+.-  |+...|... .+.+...|++++|++.|++.....   .+.....+--+.-++.-..++++|.+.|..+.
T Consensus       255 lL~~~~~~y--P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~  332 (468)
T PF10300_consen  255 LLEEMLKRY--PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLL  332 (468)
T ss_pred             HHHHHHHhC--CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHH
Confidence            999998753  677666554 477788999999999999765421   12234455566777888999999999999998


Q ss_pred             hCCCCCCHhhHHHHHH-HHHhcCCH-------HHHHHHHHHHHHc
Q 012126          264 NKGFVPDTLSYTTLLN-SLCRKKKL-------REAYKLLCRMKVK  300 (470)
Q Consensus       264 ~~~~~~~~~~~~~ll~-~~~~~~~~-------~~a~~~~~~m~~~  300 (470)
                      +..-- +..+|.-+.. ++...|+.       ++|.++|.+....
T Consensus       333 ~~s~W-Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  333 KESKW-SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             hcccc-HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHHH
Confidence            86422 4444544433 34456777       8999999887543

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.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.66  E-value=1.8  Score=40.01  Aligned_cols=83  Identities=11%  Similarity=0.231  Sum_probs=45.5

Q ss_pred             CHHHHHHHHHHHHHcCCchhHHHHHHHHHhCC-C-ccCHHHHHHHHHHHHhc---CCChhhHHHHHHHHHHCCCCCCHHH
Q 012126          129 TPSLFTYLIKIYAESNLPDRALKTFRSMLEFN-C-KPLPKQLNRILELLVTH---RNYLRPAFDLFKSAHKHGVLPNTKS  203 (470)
Q Consensus       129 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~-~p~~~~~~~ll~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~  203 (470)
                      ++.+...++-.|-...+++.-+++++.+.... + .++..............   .|+.++|++++..+......++..+
T Consensus       140 s~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~  219 (374)
T PF13281_consen  140 SPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDT  219 (374)
T ss_pred             ChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHH
Confidence            34444555666777778888888887776531 0 12222222222222223   4566777777777554444456666


Q ss_pred             HHHHHHHH
Q 012126          204 YNIMMRAF  211 (470)
Q Consensus       204 ~~~li~~~  211 (470)
                      |..+.+.|
T Consensus       220 ~gL~GRIy  227 (374)
T PF13281_consen  220 LGLLGRIY  227 (374)
T ss_pred             HHHHHHHH
Confidence            66666554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.64  E-value=0.11  Score=48.58  Aligned_cols=100  Identities=12%  Similarity=0.005  Sum_probs=73.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 012126          340 NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHF----SVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWV  415 (470)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  415 (470)
                      +...++.+..+|.+.|++++|+..|++.++.  .|+.    ..|..+..+|...|++++|++.+++.++.+ .+   .|.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n~---~f~  147 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-NL---KFS  147 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-ch---hHH
Confidence            5678899999999999999999999999885  4553    358899999999999999999999998852 11   222


Q ss_pred             HHHH--HHHcCCcHHHHHHHHHHHHHccccCC
Q 012126          416 MIVP--QICAGEEMEKLGEVLNEIVKVEIKGD  445 (470)
Q Consensus       416 ~l~~--~~~~~g~~~~a~~~~~~m~~~~~~p~  445 (470)
                      .+..  .+..-.+.++..++++++.+-|....
T Consensus       148 ~i~~DpdL~plR~~pef~eLlee~rk~G~~~g  179 (453)
T PLN03098        148 TILNDPDLAPFRASPEFKELQEEARKGGEDIG  179 (453)
T ss_pred             HHHhCcchhhhcccHHHHHHHHHHHHhCCccC
Confidence            1111  11222344577778888877765443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.60  E-value=2  Score=40.13  Aligned_cols=339  Identities=17%  Similarity=0.103  Sum_probs=184.9

Q ss_pred             hcCCChHHHHHHHHHhhcC-CCCCC---C--------HHHH-HHHHHHHHccCCchHHHHHHHHHhhCCCC----CCHHH
Q 012126           70 ASQSDPLLAKEIFDYASRQ-PNFRH---S--------NSTY-LILILKLGRAKYFSLIDDILITLKSEHYP----VTPSL  132 (470)
Q Consensus        70 ~~~~~~~~a~~~~~~~~~~-~~~~~---~--------~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~  132 (470)
                      -+.+.++.|++.+..-..+ .+..+   +        ...+ +..++.++..|++.+++.+++++...-++    -+..+
T Consensus        90 Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~  169 (549)
T PF07079_consen   90 YKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDM  169 (549)
T ss_pred             HHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHH
Confidence            4688899999987744332 11111   1        1112 34567889999999999999988766443    57888


Q ss_pred             HHHHHHHHHHc--------CCchhHHHHH-------HHHHhC------CCccCHHHHHHHHHHHHhcC-CChhhHHHHHH
Q 012126          133 FTYLIKIYAES--------NLPDRALKTF-------RSMLEF------NCKPLPKQLNRILELLVTHR-NYLRPAFDLFK  190 (470)
Q Consensus       133 ~~~li~~~~~~--------g~~~~A~~~~-------~~~~~~------~~~p~~~~~~~ll~~~~~~~-~~~~~a~~~~~  190 (470)
                      |+.++-.++++        ...+-+.+.|       +++...      .+.|.......++..+.... ....--.++++
T Consensus       170 yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~  249 (549)
T PF07079_consen  170 YDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILE  249 (549)
T ss_pred             HHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHH
Confidence            88866665543        1222222222       222211      23444444455554443221 12333444555


Q ss_pred             HHHHCCCCCCHH-HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 012126          191 SAHKHGVLPNTK-SYNIMMRAFCFNGDISIAYTLFNKMFERGVMP----DVESYRILMQGLCRKSQVNRAVDLLEDMLNK  265 (470)
Q Consensus       191 ~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  265 (470)
                      ...+.-+.|+.. +...|...+..  +.+++..+-+.+....+.+    =..+|..++....+.++...|.+.+.-+.-.
T Consensus       250 ~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l  327 (549)
T PF07079_consen  250 NWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL  327 (549)
T ss_pred             HHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc
Confidence            444444445432 22333333333  4444444443332221110    2345666677777777777777666555432


Q ss_pred             CCCC-------------------CHhhHH------------------------HHHHH---HHhcCC-HHHHHHHHHHHH
Q 012126          266 GFVP-------------------DTLSYT------------------------TLLNS---LCRKKK-LREAYKLLCRMK  298 (470)
Q Consensus       266 ~~~~-------------------~~~~~~------------------------~ll~~---~~~~~~-~~~a~~~~~~m~  298 (470)
                      .+..                   |...++                        -|+..   +-+.|. -++|+++++.+.
T Consensus       328 dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il  407 (549)
T PF07079_consen  328 DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLIL  407 (549)
T ss_pred             CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            1110                   111111                        11111   122333 667777777776


Q ss_pred             HcCCCCCHHHHHHHH----HHHHh---cCCHhHHHHHHHhchhCCCCCCH----HHHHHHHHH--HHhcCChHHHHHHHH
Q 012126          299 VKGCNPDIVHYNTVV----LGFCR---EGRAIDACKVLEDMPSNGCLPNL----VSYRTLVGG--LCDQGMFDVAKKYMQ  365 (470)
Q Consensus       299 ~~~~~~~~~~~~~li----~~~~~---~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~--~~~~g~~~~a~~~~~  365 (470)
                      +.. .-|...-|.+.    ..|.+   ...+.+-+.+-+-+.+.|+.|-.    ..-|.|.+|  +...|++.++.-.-.
T Consensus       408 ~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~  486 (549)
T PF07079_consen  408 QFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSS  486 (549)
T ss_pred             Hhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            541 12333222222    23322   23345555565666677877633    344445443  456899999887766


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012126          366 LMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIV  418 (470)
Q Consensus       366 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  418 (470)
                      .+.+  +.|++.+|..+.-+.....++++|..++..     ++|+..++++=+
T Consensus       487 WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~-----LP~n~~~~dskv  532 (549)
T PF07079_consen  487 WLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQK-----LPPNERMRDSKV  532 (549)
T ss_pred             HHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHh-----CCCchhhHHHHH
Confidence            6666  689999999999999999999999999976     456777776543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.59  E-value=2.6  Score=41.50  Aligned_cols=22  Identities=18%  Similarity=0.170  Sum_probs=14.0

Q ss_pred             HHHHHHcCChHHHHHHHHHHHh
Q 012126          243 MQGLCRKSQVNRAVDLLEDMLN  264 (470)
Q Consensus       243 l~~~~~~~~~~~a~~~~~~~~~  264 (470)
                      |..+.+.|..-.|-+++.+|.+
T Consensus       930 Ie~~Rka~~~~daarll~qmae  951 (1189)
T KOG2041|consen  930 IEKDRKAGRHLDAARLLSQMAE  951 (1189)
T ss_pred             HHHhhhcccchhHHHHHHHHhH
Confidence            4556667776666666666654

>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=95.55  E-value=1  Score=36.36  Aligned_cols=135  Identities=16%  Similarity=0.225  Sum_probs=83.2

Q ss_pred             HHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHC
Q 012126          116 DILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKH  195 (470)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~  195 (470)
                      +.++.+...++++++..+..+++.+.+.|++...    ..++..++-+|.......+-.+.   +....+.++=-+|.+.
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~---~~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLG---NQYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhH---ccChHHHHHHHHHHHH
Confidence            4455566778889999999999999999986554    44555566677666655553332   2233344444444331


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 012126          196 GVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK  265 (470)
Q Consensus       196 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  265 (470)
                          =...+..++..+...|++-+|.++.+.....    +...-..++.+..+.+|...-..+|+-..+.
T Consensus        88 ----L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   88 ----LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             ----hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                0113556777888889998888888765332    2223345666666777766655555555543

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.43  E-value=0.76  Score=43.90  Aligned_cols=160  Identities=10%  Similarity=0.035  Sum_probs=107.2

Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHh
Q 012126          244 QGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAI  323 (470)
Q Consensus       244 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  323 (470)
                      +...-.++++.+.++.+.-.-.. ..+..-.+.++..+-+.|-.+.|+++...-..            -.....+.|+.+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~-~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~  335 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLP-NIPKDQGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLD  335 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGG-G--HHHHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HH
T ss_pred             HHHHHcCChhhhhhhhhhhhhcc-cCChhHHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHH
Confidence            44456788888777765211010 11245578889999999999999987655322            234456899999


Q ss_pred             HHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 012126          324 DACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELL  403 (470)
Q Consensus       324 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  403 (470)
                      .|.++.++..      +...|..|.......|+++-|++.+.+..+         +..|+-.|.-.|+.+.-.++.+...
T Consensus       336 ~A~~~a~~~~------~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~  400 (443)
T PF04053_consen  336 IALEIAKELD------DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAE  400 (443)
T ss_dssp             HHHHHCCCCS------THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHhcC------cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHH
Confidence            9998876643      677999999999999999999999987643         5667777888999988888888777


Q ss_pred             HCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHH
Q 012126          404 KAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEI  437 (470)
Q Consensus       404 ~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m  437 (470)
                      ..|-      ++....++.-.|+.++..+++.+.
T Consensus       401 ~~~~------~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  401 ERGD------INIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             HTT-------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             HccC------HHHHHHHHHHcCCHHHHHHHHHHc
Confidence            7652      455556666778888888877654

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.

>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=95.41  E-value=0.85  Score=34.68  Aligned_cols=63  Identities=11%  Similarity=0.089  Sum_probs=37.4

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 012126          309 YNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF  372 (470)
Q Consensus       309 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  372 (470)
                      ....+..+...|+-+...+++.++.+ +-.++......+..+|.+.|+..++..++.++-+.|+
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            44455666667777777777777654 2356666667777777777777777777777776664

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.36  E-value=0.68  Score=44.84  Aligned_cols=165  Identities=15%  Similarity=0.112  Sum_probs=93.3

Q ss_pred             HHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCH------HHHHHHHHHHHH----cCCchhHHHHHHHHHhCCCccCHH
Q 012126           97 TYLILILKLGRAKYFSLIDDILITLKSEHYPVTP------SLFTYLIKIYAE----SNLPDRALKTFRSMLEFNCKPLPK  166 (470)
Q Consensus        97 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~  166 (470)
                      .+..+++..+=.|+-+.+.+.+....+.+--..+      -.|+..+..++.    ....+.|.+++..+.+  .-|+..
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~--~yP~s~  267 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLK--RYPNSA  267 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHH--hCCCcH
Confidence            3455555555556666666665555443211111      112222222221    2344567777777666  346666


Q ss_pred             HHHHHHHHHHhcCCChhhHHHHHHHHHHCC---CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012126          167 QLNRILELLVTHRNYLRPAFDLFKSAHKHG---VLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILM  243 (470)
Q Consensus       167 ~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  243 (470)
                      .|...-..+....|+.++|.+.|++.....   .+.....+--+.-.+.-.+++++|.+.|..+.+.+-- +..+|.-+.
T Consensus       268 lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~W-Ska~Y~Y~~  346 (468)
T PF10300_consen  268 LFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKW-SKAFYAYLA  346 (468)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcccc-HHHHHHHHH
Confidence            776666666666777777777777544211   1123344455666677888899998888888876322 334443333


Q ss_pred             -HHHHHcCCh-------HHHHHHHHHHHh
Q 012126          244 -QGLCRKSQV-------NRAVDLLEDMLN  264 (470)
Q Consensus       244 -~~~~~~~~~-------~~a~~~~~~~~~  264 (470)
                       .++...++.       ++|.++|.+...
T Consensus       347 a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  347 AACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence             334456666       888888887654

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.32  E-value=1.2  Score=35.76  Aligned_cols=133  Identities=14%  Similarity=0.135  Sum_probs=63.2

Q ss_pred             HHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHH-HHHHH--
Q 012126          131 SLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTK-SYNIM--  207 (470)
Q Consensus       131 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l--  207 (470)
                      ..|..-+. .+..+..++|+.-|..+.+.|...-+.....-...+....|+...|...|+++-.....|-.. -...|  
T Consensus        60 d~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlra  138 (221)
T COG4649          60 DAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRA  138 (221)
T ss_pred             HHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHH
Confidence            34444333 345566677777777776655443333333333334445555666666666655443323221 11111  


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 012126          208 MRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLN  264 (470)
Q Consensus       208 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  264 (470)
                      .-.+...|.++.+..-.+-+-..+-+.....-..|.-+-.+.|++.+|.+.|..+..
T Consensus       139 a~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         139 AYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            112334555555555554444333322333334444445555666666666655544

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.18  E-value=1.2  Score=35.00  Aligned_cols=125  Identities=9%  Similarity=0.067  Sum_probs=73.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 012126          205 NIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRK  284 (470)
Q Consensus       205 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  284 (470)
                      ..++..+...+.......+++.+...+. .+...++.++..|++.+ ..+.++.+..      ..+......+++.|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            4556666667777788888887777763 46677777888877653 3444444442      12334445566777777


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-CCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHH
Q 012126          285 KKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCRE-GRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLC  352 (470)
Q Consensus       285 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  352 (470)
                      +-++++..++.++...         ...+..+... ++++.|.+++.+-      .+...|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~~---------~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGNF---------KDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcCH---------HHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            7777777777665321         1223333333 6677777666651      14456666665554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.08  E-value=2  Score=37.04  Aligned_cols=71  Identities=13%  Similarity=0.113  Sum_probs=40.2

Q ss_pred             HhcCChhHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 012126          212 CFNGDISIAYTLFNKMFERGV--MPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLC  282 (470)
Q Consensus       212 ~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  282 (470)
                      .+.|++++|.+.|+.+..+.+  +-...+.-.++.++.+.++++.|+...++....-+......|..-|.+++
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs  117 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLS  117 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHH
Confidence            466777777777777765421  11344455556666677777777777777665543323334444444433

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.95  E-value=2.2  Score=36.81  Aligned_cols=183  Identities=14%  Similarity=0.180  Sum_probs=96.0

Q ss_pred             HHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 012126          165 PKQLNRILELLVTHRNYLRPAFDLFKSAHKHGV--LPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRIL  242 (470)
Q Consensus       165 ~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  242 (470)
                      ...|+..+..+  ..|++++|.+.|+.+....+  +-...+--.++.++-+.++++.|...+++....-+.-...-|...
T Consensus        35 ~~LY~~g~~~L--~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Y  112 (254)
T COG4105          35 SELYNEGLTEL--QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYY  112 (254)
T ss_pred             HHHHHHHHHHH--hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHH
Confidence            34445444444  45667888888887775432  113455666778888999999999999998876544444555555


Q ss_pred             HHHHHHc-------CChHH---HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 012126          243 MQGLCRK-------SQVNR---AVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTV  312 (470)
Q Consensus       243 l~~~~~~-------~~~~~---a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  312 (470)
                      |.+.+..       .|...   |+.-|+++++.  -||             ..=...|...+..+...    =...=-.+
T Consensus       113 lkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~r--yPn-------------S~Ya~dA~~~i~~~~d~----LA~~Em~I  173 (254)
T COG4105         113 LKGLSYFFQIDDVTRDQSAARAAFAAFKELVQR--YPN-------------SRYAPDAKARIVKLNDA----LAGHEMAI  173 (254)
T ss_pred             HHHHHHhccCCccccCHHHHHHHHHHHHHHHHH--CCC-------------CcchhhHHHHHHHHHHH----HHHHHHHH
Confidence            5555532       22222   22222333222  111             11111222222111110    00001124


Q ss_pred             HHHHHhcCCHhHHHHHHHhchhCCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          313 VLGFCREGRAIDACKVLEDMPSNGCLPN---LVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       313 i~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      .+-|.+.|.+..|..-+++|.+. .+-+   ...+-.+..+|...|-.++|.+.-.-+..
T Consensus       174 aryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         174 ARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            45567777777777777777665 2212   23444555667777777776665554433

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.93  E-value=0.5  Score=40.96  Aligned_cols=59  Identities=12%  Similarity=0.165  Sum_probs=25.9

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          381 ALIKGFCNVGKVDEACGVLEELLKAG--EAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      -|..++...|++++|..+|..+.+.-  -+.-+..+..|..+..+.|+.++|..+|+++.+
T Consensus       183 WLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         183 WLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            34444444555555555544443321  011123444444444455555555555555443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.83  E-value=1.2  Score=38.62  Aligned_cols=97  Identities=15%  Similarity=0.101  Sum_probs=72.2

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhcC-CCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCC--CCCCHHHHHHHHHH
Q 012126           63 CRVQKLIASQSDPLLAKEIFDYASRQ-PNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEH--YPVTPSLFTYLIKI  139 (470)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~  139 (470)
                      ....--+...|++..|.+.|....+. |+-...+..+-.|...+...|+++.|..+|..+.+.-  .+--++.+-.|..+
T Consensus       145 Y~~A~~~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~  224 (262)
T COG1729         145 YNAALDLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVS  224 (262)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHH
Confidence            33344455677899999988877643 3334456678888899999999999999998887762  12235677778888


Q ss_pred             HHHcCCchhHHHHHHHHHhC
Q 012126          140 YAESNLPDRALKTFRSMLEF  159 (470)
Q Consensus       140 ~~~~g~~~~A~~~~~~~~~~  159 (470)
                      ..+.|+.++|..+|+++.+.
T Consensus       225 ~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         225 LGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHhcCHHHHHHHHHHHHHH
Confidence            88899999999999988874

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.80  E-value=2.6  Score=37.08  Aligned_cols=121  Identities=15%  Similarity=0.088  Sum_probs=56.6

Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 012126          211 FCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREA  290 (470)
Q Consensus       211 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  290 (470)
                      ....|++.+|..+|+........ +...-..+..+|...|+.+.|..++..+....-.........-|..+.+.....+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            34556666666666665554333 33444455666666666666666665554332111112212223333333333333


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          291 YKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       291 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      ..+-.+.-..  +-|...-..+...+...|+.++|++.+-.+.+
T Consensus       223 ~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~  264 (304)
T COG3118         223 QDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLR  264 (304)
T ss_pred             HHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3333333322  11344444455555666666666655544443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.73  E-value=5.1  Score=40.00  Aligned_cols=317  Identities=11%  Similarity=0.064  Sum_probs=176.3

Q ss_pred             HccCCchHHHHHHHHH--------hhCCCCCCHHHHHH-----HHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHH
Q 012126          106 GRAKYFSLIDDILITL--------KSEHYPVTPSLFTY-----LIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRIL  172 (470)
Q Consensus       106 ~~~~~~~~a~~~~~~~--------~~~~~~~~~~~~~~-----li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll  172 (470)
                      .+..++++-..+.+.+        ...|+|.+..-|..     +|+.+...+.+..|+++-..+-..-..- ...+....
T Consensus       400 l~~~~~d~~~~v~~~lrVln~~r~~~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa  478 (829)
T KOG2280|consen  400 LRTPNPDEYMRVCRELRVLNALRDVRIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWA  478 (829)
T ss_pred             cccCChHHHHHHHHHHHHHhhhcccccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHH
Confidence            3445555555444433        33477777766665     6777888899999999887765421111 33333333


Q ss_pred             HHHHhcCC-ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCC----CCCHHHHHHHHHHHH
Q 012126          173 ELLVTHRN-YLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGV----MPDVESYRILMQGLC  247 (470)
Q Consensus       173 ~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~----~p~~~~~~~ll~~~~  247 (470)
                      ....+... .-+++.+..++-.+... .....|..+.+-.-.+|+.+.|..+++.=...+.    -.+..-+...+.-+.
T Consensus       479 ~~kI~~~d~~d~~vld~I~~kls~~~-~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kai  557 (829)
T KOG2280|consen  479 RRKIKQSDKMDEEVLDKIDEKLSAKL-TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAI  557 (829)
T ss_pred             HHHHhccCccchHHHHHHHHHhcccC-CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHH
Confidence            33333211 11233333333222222 3456677777777789999999988865333221    112233455666677


Q ss_pred             HcCChHHHHHHHHHHHhCCC-----------CCCHhhHHHHHH---------HHHhcCCHHHHHHHH--HHHHH----cC
Q 012126          248 RKSQVNRAVDLLEDMLNKGF-----------VPDTLSYTTLLN---------SLCRKKKLREAYKLL--CRMKV----KG  301 (470)
Q Consensus       248 ~~~~~~~a~~~~~~~~~~~~-----------~~~~~~~~~ll~---------~~~~~~~~~~a~~~~--~~m~~----~~  301 (470)
                      ..|+.+-...++..+.+.-.           ......|.-+++         .|- .++-.++...|  +....    .|
T Consensus       558 es~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~~~~r~~~~~~l~d~y~-q~dn~~~~a~~~~q~~~~~~~~~~  636 (829)
T KOG2280|consen  558 ESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYRQFMRHQDRATLYDFYN-QDDNHQALASFHLQASYAAETIEG  636 (829)
T ss_pred             hcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHhhchhhhhhhhh-cccchhhhhhhhhhhhhhhhhhcc
Confidence            88888888887777654310           001111111111         111 11111111111  11000    11


Q ss_pred             CCCCHHHHHHHHHHHHhcCCH----------hHHHHHHHhchh-CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 012126          302 CNPDIVHYNTVVLGFCREGRA----------IDACKVLEDMPS-NGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK  370 (470)
Q Consensus       302 ~~~~~~~~~~li~~~~~~~~~----------~~a~~~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  370 (470)
                      ..|+   .......|.+....          .+-+.+.+.+.. .|......+.+--+.-+...|+..+|.++-.+.+  
T Consensus       637 r~~~---lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk--  711 (829)
T KOG2280|consen  637 RIPA---LKTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK--  711 (829)
T ss_pred             cchh---HHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC--
Confidence            2222   22233344443331          111222222222 1333444556666777788899999988877653  


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Q 012126          371 GFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       371 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  438 (470)
                        -||-..|..-+.+++..+++++-+++-+.+.      .+.-|.-.+.+|.+.|+.++|.+++...-
T Consensus       712 --ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~  771 (829)
T KOG2280|consen  712 --IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVG  771 (829)
T ss_pred             --CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhccC
Confidence              5788899999999999999998777665542      35667788899999999999999987764

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.73  E-value=1.5  Score=34.08  Aligned_cols=72  Identities=10%  Similarity=0.066  Sum_probs=40.3

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 012126          210 AFCFNGDISIAYTLFNKMFERGV--MPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSL  281 (470)
Q Consensus       210 ~~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  281 (470)
                      ...+.|++++|.+.|+.+..+-+  +-....--.++.+|.+.+++++|...+++.++..+.-...-|...+.++
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL   92 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGL   92 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHH
Confidence            33466777777777776665521  1123444456666777777777777777766655433333444444443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.69  E-value=2.4  Score=36.08  Aligned_cols=95  Identities=22%  Similarity=0.124  Sum_probs=42.7

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHH-
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFER-GVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLN-  279 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~-  279 (470)
                      ..+......+...+.+..+...+...... ........+......+...+++..+.+.+.........+ ......... 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHH
Confidence            44444555555555555555555554431 122233444444444555555555555555554433221 111111112 


Q ss_pred             HHHhcCCHHHHHHHHHHH
Q 012126          280 SLCRKKKLREAYKLLCRM  297 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m  297 (470)
                      .+...|+++.+...+.+.
T Consensus       139 ~~~~~~~~~~a~~~~~~~  156 (291)
T COG0457         139 ALYELGDYEEALELYEKA  156 (291)
T ss_pred             HHHHcCCHHHHHHHHHHH
Confidence            344455555555555554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.68  E-value=0.53  Score=43.09  Aligned_cols=125  Identities=14%  Similarity=0.070  Sum_probs=82.6

Q ss_pred             HHHhcCCChHHHHHHHHHhhc----CCCCCCC---------HHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHH
Q 012126           67 KLIASQSDPLLAKEIFDYASR----QPNFRHS---------NSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLF  133 (470)
Q Consensus        67 ~~~~~~~~~~~a~~~~~~~~~----~~~~~~~---------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  133 (470)
                      ..+-+.|++..|..-|+.+..    ..++++.         ...+..+.-.+.+.+++..|.+..++....+ +.+....
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KAL  294 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKAL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHH
Confidence            345678888888888776532    1112111         1246666677788888888888888888776 6677777


Q ss_pred             HHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcC-CChhhHHHHHHHHHH
Q 012126          134 TYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHR-NYLRPAFDLFKSAHK  194 (470)
Q Consensus       134 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~-~~~~~a~~~~~~~~~  194 (470)
                      -.-..+|...|+++.|+..|+++.+  +.|+....+.-|..|.... ...+...++|..|..
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            7777888888888888888888887  5677666665555554322 223344556666653

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.60  E-value=1.5  Score=33.32  Aligned_cols=90  Identities=18%  Similarity=0.068  Sum_probs=59.3

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC-CCCCCHhh---HHHHHHHHHhcC
Q 012126          210 AFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK-GFVPDTLS---YTTLLNSLCRKK  285 (470)
Q Consensus       210 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~---~~~ll~~~~~~~  285 (470)
                      +++..|+++.|++.|.+.+..-++ ....||.-..++.-.|+.++|++=+++.++. |.+ ....   |..-...|...|
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~-raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhC
Confidence            456778888888888777665333 6677777778888888888888777777653 222 2222   222233456677


Q ss_pred             CHHHHHHHHHHHHHcC
Q 012126          286 KLREAYKLLCRMKVKG  301 (470)
Q Consensus       286 ~~~~a~~~~~~m~~~~  301 (470)
                      +.+.|..-|+..-+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            7788877777776665

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.56  E-value=2.6  Score=35.95  Aligned_cols=207  Identities=15%  Similarity=0.078  Sum_probs=107.3

Q ss_pred             HHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          130 PSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMR  209 (470)
Q Consensus       130 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  209 (470)
                      ...|..-..+|-...++++|...+.+..+. ..-+...|+.        ...++.|.-+.+++.+..  --+..|+....
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhA--------AKayEqaamLake~~kls--Evvdl~eKAs~   99 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHA--------AKAYEQAAMLAKELSKLS--EVVDLYEKASE   99 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHH--------HHHHHHHHHHHHHHHHhH--HHHHHHHHHHH
Confidence            455666666777778888888877766531 1111111221        112566666666666541  12345667777


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC---CC--CCCHhhHHHHHHHHHhc
Q 012126          210 AFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK---GF--VPDTLSYTTLLNSLCRK  284 (470)
Q Consensus       210 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~--~~~~~~~~~ll~~~~~~  284 (470)
                      +|...|..+.|-..+++.-+.                ..+-++++|+++|.+....   +-  ..-...+..+-+.+.+.
T Consensus       100 lY~E~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl  163 (308)
T KOG1585|consen  100 LYVECGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRL  163 (308)
T ss_pred             HHHHhCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhh
Confidence            888888888877777664332                1233455555555543321   10  01112233333445555


Q ss_pred             CCHHHHHHHHHHHHHc----CCCCCH-HHHHHHHHHHHhcCCHhHHHHHHHhchhCC---CCCCHHHHHHHHHHHHhcCC
Q 012126          285 KKLREAYKLLCRMKVK----GCNPDI-VHYNTVVLGFCREGRAIDACKVLEDMPSNG---CLPNLVSYRTLVGGLCDQGM  356 (470)
Q Consensus       285 ~~~~~a~~~~~~m~~~----~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~li~~~~~~g~  356 (470)
                      ..+++|-..+.+-...    .-.++. ..|-..|-.+.-..++..|...++.-.+.+   -.-+..+...|+.+|- .|+
T Consensus       164 ~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD  242 (308)
T KOG1585|consen  164 EKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGD  242 (308)
T ss_pred             HHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cCC
Confidence            5555555444332111    011121 234445555666677888888877743321   1234566667776664 466


Q ss_pred             hHHHHHHH
Q 012126          357 FDVAKKYM  364 (470)
Q Consensus       357 ~~~a~~~~  364 (470)
                      .+++.+++
T Consensus       243 ~E~~~kvl  250 (308)
T KOG1585|consen  243 IEEIKKVL  250 (308)
T ss_pred             HHHHHHHH
Confidence            66665554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.48  E-value=3.2  Score=38.20  Aligned_cols=97  Identities=13%  Similarity=0.045  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNS  280 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  280 (470)
                      ..+++.+.-+|.+.+++..|++..+..++.+.. |+-..--=..++...|+++.|+..|+++++..+. |-.+-+-++.+
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 LACHLNLAACYLKLKEYKEAIESCNKVLELDPN-NVKALYRRGQALLALGEYDLARDDFQKALKLEPS-NKAARAELIKL  334 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCC-chhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHH
Confidence            345666777778888888888888887776533 6666666677778888888888888888776433 33344444444


Q ss_pred             HHhcCCH-HHHHHHHHHHHH
Q 012126          281 LCRKKKL-REAYKLLCRMKV  299 (470)
Q Consensus       281 ~~~~~~~-~~a~~~~~~m~~  299 (470)
                      --+.... +...++|..|..
T Consensus       335 ~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            3333333 333556666644

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.47  E-value=4.6  Score=38.40  Aligned_cols=58  Identities=12%  Similarity=0.105  Sum_probs=33.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 012126          346 TLVGGLCDQGMFDVAKKYMQLMISKG-FSPHFSVSHALIKGFCNVGKVDEACGVLEELL  403 (470)
Q Consensus       346 ~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  403 (470)
                      .+..++-+.|+.++|.+.+.+|.+.. ..-+..+...|+.++...+.+.++..++.+..
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            34445556666677777666666532 11123355566666666666766666666653

The molecular function of this protein is uncertain.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.41  E-value=2.5  Score=42.57  Aligned_cols=178  Identities=15%  Similarity=0.168  Sum_probs=101.8

Q ss_pred             HHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHH---HHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          133 FTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILEL---LVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMR  209 (470)
Q Consensus       133 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~---~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  209 (470)
                      ...-++...+...++-|+.+-+.-.     .+......+...   +...+|++++|...|-+-+.. ++|     ..+|.
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~~~-----~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~  405 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKSQH-----LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIK  405 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhcC-----CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHH
Confidence            4445555566666666665544321     122233333222   233566677777777665532 112     23455


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 012126          210 AFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLRE  289 (470)
Q Consensus       210 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  289 (470)
                      -|....++..-..+++.+.+.|+. +...-..|+.+|.+.++.++..++.+... .|..  ..-....+..+.+.+-.++
T Consensus       406 kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~  481 (933)
T KOG2114|consen  406 KFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDE  481 (933)
T ss_pred             HhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHH
Confidence            556666666777777777777766 55666678888888888887776665543 2211  1124455666666677777


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhch
Q 012126          290 AYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMP  333 (470)
Q Consensus       290 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  333 (470)
                      |..+-.....     .......+   +-..+++++|++.+..+.
T Consensus       482 a~~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  482 AELLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSLP  517 (933)
T ss_pred             HHHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcCC
Confidence            7665554432     23333333   335677888888877764

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.36  E-value=1.8  Score=33.72  Aligned_cols=54  Identities=13%  Similarity=0.196  Sum_probs=24.9

Q ss_pred             HhcCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          352 CDQGMFDVAKKYMQLMISKGF--SPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       352 ~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      .+.|++++|.+.|+.+..+-.  +-....--.++.+|.+.|++++|...++++++.
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            344555555555555544310  111223334445555555555555555555544

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=94.23  E-value=6.5  Score=39.72  Aligned_cols=223  Identities=12%  Similarity=0.130  Sum_probs=94.6

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC-CCCHhhHHHHHHHHHh---c
Q 012126          209 RAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGF-VPDTLSYTTLLNSLCR---K  284 (470)
Q Consensus       209 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~---~  284 (470)
                      ..+.-.|+++.|.+.+-+  ..+...+.+.+.+.+.-|.-.+-.+...   ..+..... .|...-+..||..|++   .
T Consensus       266 ~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~~  340 (613)
T PF04097_consen  266 QVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFEI  340 (613)
T ss_dssp             HHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTTT
T ss_pred             HHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHhc
Confidence            444556777777777665  2223335555555544433322222211   22221111 1122567888888886   4


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHHhcCCHhHHHHHHHhchhCC---------------CCC-CHHH---H
Q 012126          285 KKLREAYKLLCRMKVKGCNPDIVHYNTVV-LGFCREGRAIDACKVLEDMPSNG---------------CLP-NLVS---Y  344 (470)
Q Consensus       285 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~~~---------------~~p-~~~~---~  344 (470)
                      .+..+|.+.+--+....-+.....+...+ ......++++.   ++-.+...|               ... +...   .
T Consensus       341 td~~~Al~Y~~li~~~~~~~~~~l~~~~l~eLvletref~~---LLG~i~~dG~r~~G~i~~~~~Li~~~~~~~~~~~i~  417 (613)
T PF04097_consen  341 TDPREALQYLYLICLFKDPEQRNLFHECLRELVLETREFDL---LLGDINPDGSRTPGLIERRLSLIKFDDDEDFLREII  417 (613)
T ss_dssp             T-HHHHHHHHHGGGGS-SCCHHHHHHHHHHHHHHHH--HHH---HHEEE-TTS-EEE-HHHHTGGGGT-SSSSHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHccCCHHH---HCCCCCCCCccccceeeccccccCCCCcHHHHHHHH
Confidence            67888888888776653211222222222 22233332222   222211111               111 2222   2


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH-HHHccCC-----------HHHHHHHHHHHHHCC-----C
Q 012126          345 RTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIK-GFCNVGK-----------VDEACGVLEELLKAG-----E  407 (470)
Q Consensus       345 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~-~~~~~g~-----------~~~a~~~~~~~~~~~-----~  407 (470)
                      .....-+...|++++|..+|....+.+  .-..+.|..+. +......           ...|..+.+.....+     +
T Consensus       418 ~~~A~~~e~~g~~~dAi~Ly~La~~~d--~vl~lln~~Ls~~l~~~~~~~~~~s~~~~l~~la~~i~~~y~~~~~~~~~~  495 (613)
T PF04097_consen  418 EQAAREAEERGRFEDAILLYHLAEEYD--KVLSLLNRLLSQVLSQPSSSSLSDSERERLIELAKEILERYKSNPHISSKV  495 (613)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHTT-HH--HHHHHHHHHHHHHHHCSSTSSSSSTTTTSHHHHHHHHHHHHTTSHHHHTTS
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHhhHH--HHHHHHHHHHHHHHcCccccccccchhhhHHHHHHHHHHHHHhCcchHhhc
Confidence            223344667888888888887664321  11223333332 2222222           344555554443321     1


Q ss_pred             -CCCHHHHHHHHHH-----HHcCCcHHHHHHHHHHHHHccccC
Q 012126          408 -APHEDTWVMIVPQ-----ICAGEEMEKLGEVLNEIVKVEIKG  444 (470)
Q Consensus       408 -~p~~~~~~~l~~~-----~~~~g~~~~a~~~~~~m~~~~~~p  444 (470)
                       ..+..|+..|+..     +...|++++|++.++++   ++-|
T Consensus       496 ~~~~~~t~~~Ll~L~~ff~~~~~g~~~~AL~~i~~L---~liP  535 (613)
T PF04097_consen  496 SRKNRETFQLLLDLAEFFDLYHAGQYEQALDIIEKL---DLIP  535 (613)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHT---T-S-
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhC---CCCC
Confidence             1123455555543     46789999998887776   4555

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PRK11906 transcriptional regulator; Provisional

Probab=94.23  E-value=4.1  Score=38.48  Aligned_cols=80  Identities=11%  Similarity=-0.029  Sum_probs=40.6

Q ss_pred             hHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHH
Q 012126          112 SLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKS  191 (470)
Q Consensus       112 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~  191 (470)
                      .+|.++-+...+.+ +.|+.+...+..+....++++.|...|++...  ..|+..........+....|+.++|.+.+++
T Consensus       321 ~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~--L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~  397 (458)
T PRK11906        321 QKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKI--HSTDIASLYYYRALVHFHNEKIEEARICIDK  397 (458)
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhh--cCCccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            34445555555554 44555555555555555666666666666555  2344443333333333344445555555555


Q ss_pred             HHH
Q 012126          192 AHK  194 (470)
Q Consensus       192 ~~~  194 (470)
                      ..+
T Consensus       398 alr  400 (458)
T PRK11906        398 SLQ  400 (458)
T ss_pred             Hhc
Confidence            443

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=94.22  E-value=2.4  Score=34.19  Aligned_cols=133  Identities=14%  Similarity=0.225  Sum_probs=68.3

Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC--CHHHHHHHHHHHH
Q 012126          221 YTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKK--KLREAYKLLCRMK  298 (470)
Q Consensus       221 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~  298 (470)
                      .++++.+.+.++.|+...+..++..+.+.|.+....    .++..++-+|.......+-.+....  -.+-|.+++.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            344555556667777777777777777777654443    3334455555544443332222211  1233444444433


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          299 VKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       299 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      .        .+..++..+...|++-+|+++.+.....    +......++++-.+.++...-..+++-..+
T Consensus        90 ~--------~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   90 T--------AYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             h--------hHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1        2445666677777777777777664332    111223355555555555544444444433

>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=94.06  E-value=4.2  Score=36.38  Aligned_cols=63  Identities=16%  Similarity=0.088  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHcCChH---HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          237 ESYRILMQGLCRKSQVN---RAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       237 ~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      .++..++.+|...+..+   +|..+++.+...... ....+-.-++.+.+.++.+.+.+++.+|...
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            34455666666655533   445555555443222 2334444555666667777777777777665

It is also involved in sporulation [].

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.97  E-value=1.5  Score=33.39  Aligned_cols=91  Identities=13%  Similarity=0.010  Sum_probs=55.8

Q ss_pred             HHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH---HHHHHHHHHHccCC
Q 012126          315 GFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFS---VSHALIKGFCNVGK  391 (470)
Q Consensus       315 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~~li~~~~~~g~  391 (470)
                      +....|+.+.|++.|.+.... .+-....||.-.+++.-.|+.++|+.=+++..+..-.....   .|..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            456677777777777776654 23356667777777777777777777777776632111211   22222234566677


Q ss_pred             HHHHHHHHHHHHHCC
Q 012126          392 VDEACGVLEELLKAG  406 (470)
Q Consensus       392 ~~~a~~~~~~~~~~~  406 (470)
                      -+.|..=|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            777777777776665

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.93  E-value=0.08  Score=30.18  Aligned_cols=25  Identities=12%  Similarity=-0.045  Sum_probs=15.7

Q ss_pred             HHHHHHHHHcCCcHHHHHHHHHHHH
Q 012126          414 WVMIVPQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       414 ~~~l~~~~~~~g~~~~a~~~~~~m~  438 (470)
                      |..|...|.+.|++++|++++++.+
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5566666666666666666666654

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.85  E-value=0.8  Score=40.34  Aligned_cols=77  Identities=16%  Similarity=0.188  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHh-----CCCccCHHHHHHH
Q 012126           97 TYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLE-----FNCKPLPKQLNRI  171 (470)
Q Consensus        97 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~p~~~~~~~l  171 (470)
                      ++..+++.+...++++.+...++.+.... |-+...|..++.+|.+.|+...|+..|+++..     .|+.|........
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            45566777788888899999888888886 77888899999999999999999998887764     4666655555444


Q ss_pred             HHH
Q 012126          172 LEL  174 (470)
Q Consensus       172 l~~  174 (470)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.82  E-value=4.8  Score=36.23  Aligned_cols=129  Identities=13%  Similarity=0.129  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh--cC----CHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHhcCC--
Q 012126          253 NRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR--KK----KLREAYKLLCRMKVKGC---NPDIVHYNTVVLGFCREGR--  321 (470)
Q Consensus       253 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~--~~----~~~~a~~~~~~m~~~~~---~~~~~~~~~li~~~~~~~~--  321 (470)
                      ++.+.+++.|.+.|+.-+..+|-+.......  ..    ....+..+|+.|.+...   .++...+..++..  ..++  
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            4455566666666666555555443322222  11    24456666666665421   1233444444332  2222  


Q ss_pred             --HhHHHHHHHhchhCCCCCCH--HHHHHHHHHHHhcCC--hHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012126          322 --AIDACKVLEDMPSNGCLPNL--VSYRTLVGGLCDQGM--FDVAKKYMQLMISKGFSPHFSVSHALI  383 (470)
Q Consensus       322 --~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~li  383 (470)
                        .+.+..+|+.+.+.|+..+.  .....++..+.....  ...+..+++.+.+.|+++....|..+.
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence              23445555555555544322  222222222211111  335555666666666665555444433

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.82  E-value=0.24  Score=29.70  Aligned_cols=27  Identities=30%  Similarity=0.364  Sum_probs=13.8

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          379 SHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       379 ~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      +..+...|...|++++|.++|++.++.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344445555555555555555555543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.79  E-value=2.4  Score=37.94  Aligned_cols=156  Identities=12%  Similarity=-0.005  Sum_probs=107.6

Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC-CCCCCHhhH--HHHHHHHHhcCCHH
Q 012126          212 CFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK-GFVPDTLSY--TTLLNSLCRKKKLR  288 (470)
Q Consensus       212 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~--~~ll~~~~~~~~~~  288 (470)
                      --.|++.+|-..++++.+.- +.|...+.-.=.+|.-.|+.+.-...++++... +....-.+|  ....-++..+|-++
T Consensus       114 ~~~g~~h~a~~~wdklL~d~-PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDDY-PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             hccccccHHHHHHHHHHHhC-chhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccch
Confidence            35688888888888888763 448888888888999999999888888887754 222122223  33334455789999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhC---CCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 012126          289 EAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSN---GCLPNLVSYRTLVGGLCDQGMFDVAKKYMQ  365 (470)
Q Consensus       289 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  365 (470)
                      +|++.-++..+.+ +.|...-.+....+-..|++.++.+++.+-...   +-..-...|-...-.+...+.++.|+.+|+
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9999998887764 346777778888888899999999888765432   111112223333334556688999999997


Q ss_pred             HHHH
Q 012126          366 LMIS  369 (470)
Q Consensus       366 ~~~~  369 (470)
                      .-+-
T Consensus       272 ~ei~  275 (491)
T KOG2610|consen  272 REIW  275 (491)
T ss_pred             HHHH
Confidence            5443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=93.72  E-value=3.9  Score=34.75  Aligned_cols=83  Identities=18%  Similarity=0.129  Sum_probs=36.2

Q ss_pred             CChhhHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH-HHHHcCChHHHHH
Q 012126          180 NYLRPAFDLFKSAHKH-GVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQ-GLCRKSQVNRAVD  257 (470)
Q Consensus       180 ~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~-~~~~~~~~~~a~~  257 (470)
                      +.+..+...+...... ........+......+...+++..+.+.+.........+ ......... .+...|+++.+..
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~  151 (291)
T COG0457          73 GRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALGALYELGDYEEALE  151 (291)
T ss_pred             ccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHH
Confidence            3344455444444431 111233444444445555555555555555554433222 111111222 4555555555555


Q ss_pred             HHHHHH
Q 012126          258 LLEDML  263 (470)
Q Consensus       258 ~~~~~~  263 (470)
                      .+.+..
T Consensus       152 ~~~~~~  157 (291)
T COG0457         152 LYEKAL  157 (291)
T ss_pred             HHHHHH
Confidence            555553

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.57  E-value=1.1  Score=39.43  Aligned_cols=79  Identities=14%  Similarity=0.154  Sum_probs=54.9

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh-----CCCCCCHhhHH
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLN-----KGFVPDTLSYT  275 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  275 (470)
                      ..++..++..+...|+++.+.+.++++....+. +...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            345666777777777777777777777776543 777777778888888887777777777654     46666666555


Q ss_pred             HHHHH
Q 012126          276 TLLNS  280 (470)
Q Consensus       276 ~ll~~  280 (470)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            54444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.55  E-value=5.4  Score=35.93  Aligned_cols=131  Identities=15%  Similarity=0.180  Sum_probs=78.4

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH--cC----ChHHHHHHHHHHHhCCC---CCCHhhHHHHHHHHHhcCC-
Q 012126          217 ISIAYTLFNKMFERGVMPDVESYRILMQGLCR--KS----QVNRAVDLLEDMLNKGF---VPDTLSYTTLLNSLCRKKK-  286 (470)
Q Consensus       217 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~ll~~~~~~~~-  286 (470)
                      +++...+++.|.+.|+.-+..+|-+.......  ..    ...++..+|+.|++..+   .++...+..++..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            34556778888888887777666553333332  12    25678888888887643   2344555555443  3333 


Q ss_pred             ---HHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCC--HhHHHHHHHhchhCCCCCCHHHHHHHHH
Q 012126          287 ---LREAYKLLCRMKVKGCNPDI--VHYNTVVLGFCREGR--AIDACKVLEDMPSNGCLPNLVSYRTLVG  349 (470)
Q Consensus       287 ---~~~a~~~~~~m~~~~~~~~~--~~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~p~~~~~~~li~  349 (470)
                         .+.++.+|+.+.+.|+..+.  .....++........  ...+.++++.+.+.|+++....|..+.-
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence               35666777777776665443  233333332222211  4578888889999998888777775543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.50  E-value=0.28  Score=29.46  Aligned_cols=23  Identities=30%  Similarity=0.304  Sum_probs=9.0

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHh
Q 012126          242 LMQGLCRKSQVNRAVDLLEDMLN  264 (470)
Q Consensus       242 ll~~~~~~~~~~~a~~~~~~~~~  264 (470)
                      +...|...|++++|+++|+++++
T Consensus         7 la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    7 LARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            33333333333333333333333

>PRK11906 transcriptional regulator; Provisional

Probab=93.46  E-value=7  Score=37.03  Aligned_cols=116  Identities=14%  Similarity=0.104  Sum_probs=51.0

Q ss_pred             hhHHHHHHHHHh-CCCccCHHHHHHHHHHHHh---------cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 012126          147 DRALKTFRSMLE-FNCKPLPKQLNRILELLVT---------HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGD  216 (470)
Q Consensus       147 ~~A~~~~~~~~~-~~~~p~~~~~~~ll~~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  216 (470)
                      +.|+.+|.+... ....|+-......+..+..         ......+|.++-++..+.+.. |......+..+....++
T Consensus       275 ~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~-Da~a~~~~g~~~~~~~~  353 (458)
T PRK11906        275 YRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTV-DGKILAIMGLITGLSGQ  353 (458)
T ss_pred             HHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHhhcc
Confidence            556777777661 2244554433333332221         011223344444444444322 44444444444444455


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 012126          217 ISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLN  264 (470)
Q Consensus       217 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  264 (470)
                      ++.|..+|++....++. ...+|....-...-.|+.++|.+.+++..+
T Consensus       354 ~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alr  400 (458)
T PRK11906        354 AKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQ  400 (458)
T ss_pred             hhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            55555555555444322 233333333333444555555555555433

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=93.45  E-value=5.1  Score=35.34  Aligned_cols=142  Identities=13%  Similarity=0.157  Sum_probs=83.6

Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHh
Q 012126          244 QGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAI  323 (470)
Q Consensus       244 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  323 (470)
                      ......|++.+|..+|......... +...--.+.++|...|+.+.|..++..+...--.........-|..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            4456778888888888888776544 445566678888888888888888888755421111222222334444444444


Q ss_pred             HHHHHHHhchhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHccC
Q 012126          324 DACKVLEDMPSNGCLP-NLVSYRTLVGGLCDQGMFDVAKKYMQLMISK--GFSPHFSVSHALIKGFCNVG  390 (470)
Q Consensus       324 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g  390 (470)
                      +...+-...-.   .| |...-..+...+...|+.+.|...+-.++++  |.. |...-..++..+.-.|
T Consensus       221 ~~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g  286 (304)
T COG3118         221 EIQDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFG  286 (304)
T ss_pred             CHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcC
Confidence            44444444333   23 4555555666777777777777766666553  322 3344455555555555

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.18  E-value=4.6  Score=40.80  Aligned_cols=179  Identities=11%  Similarity=0.148  Sum_probs=110.9

Q ss_pred             HHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHH----HHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHH
Q 012126           95 NSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTY----LIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNR  170 (470)
Q Consensus        95 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~  170 (470)
                      .-....-+..+.+..-++.|..+-+.-   +  .++.....    -.+.+-+.|++++|...|-+-+.. +.|. ..   
T Consensus       334 ek~le~kL~iL~kK~ly~~Ai~LAk~~---~--~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-~V---  403 (933)
T KOG2114|consen  334 EKDLETKLDILFKKNLYKVAINLAKSQ---H--LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-EV---  403 (933)
T ss_pred             eccHHHHHHHHHHhhhHHHHHHHHHhc---C--CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-HH---
Confidence            345666777888888888888776542   2  23333333    444455689999999988776542 2232 22   


Q ss_pred             HHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 012126          171 ILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKS  250 (470)
Q Consensus       171 ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  250 (470)
                       +..+. .......-..+++.+.+.|.. +...-..|+.+|.+.++.++-.+..+... .|..  ..-....+..+.+.+
T Consensus       404 -i~kfL-daq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~sn  477 (933)
T KOG2114|consen  404 -IKKFL-DAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSN  477 (933)
T ss_pred             -HHHhc-CHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhC
Confidence             22222 222356667778888888875 77788899999999999998877766544 3321  112344566666777


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 012126          251 QVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRM  297 (470)
Q Consensus       251 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m  297 (470)
                      -.++|..+-.....     +......++   -..+++++|.+.+..+
T Consensus       478 yl~~a~~LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  478 YLDEAELLATKFKK-----HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             hHHHHHHHHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            77777665544332     333333333   3456777777776654

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=93.04  E-value=5.6  Score=36.11  Aligned_cols=227  Identities=11%  Similarity=0.015  Sum_probs=135.4

Q ss_pred             cCCChhhHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCChhHHHHHHHH----HHHCC-CCCCHHHHHHHHHHHHHcC
Q 012126          178 HRNYLRPAFDLFKSAHKHG--VLPNTKSYNIMMRAFCFNGDISIAYTLFNK----MFERG-VMPDVESYRILMQGLCRKS  250 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~----m~~~~-~~p~~~~~~~ll~~~~~~~  250 (470)
                      +..+.++++..+.+....-  ..-...++..+..+.++.|.+++++..--.    ..+.. -..-.+.|..+.+++.+..
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~   97 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLC   97 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445788888777766431  111345677777888888888877654322    22211 0011234555556666666


Q ss_pred             ChHHHHHHHHHHHhC-CCCC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-----CCHHHHHHHHHHHHhcCC
Q 012126          251 QVNRAVDLLEDMLNK-GFVP---DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCN-----PDIVHYNTVVLGFCREGR  321 (470)
Q Consensus       251 ~~~~a~~~~~~~~~~-~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-----~~~~~~~~li~~~~~~~~  321 (470)
                      ++.+++.+-..-... |..|   .-....++-.++...+.++++++.|+...+....     ....++-.|-..|.+..+
T Consensus        98 ~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D  177 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKD  177 (518)
T ss_pred             HhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHh
Confidence            666666655444332 2222   1123345666777788889999988877543111     123567788888889999


Q ss_pred             HhHHHHHHHhchh----CCCCCCHH-----HHHHHHHHHHhcCChHHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHH
Q 012126          322 AIDACKVLEDMPS----NGCLPNLV-----SYRTLVGGLCDQGMFDVAKKYMQLMIS----KGFSP-HFSVSHALIKGFC  387 (470)
Q Consensus       322 ~~~a~~~~~~m~~----~~~~p~~~-----~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~-~~~~~~~li~~~~  387 (470)
                      +++|.-+..+..+    .++.--..     ....|.-++...|++..|.+.-++..+    .|-.+ .......+.+.|-
T Consensus       178 ~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR  257 (518)
T KOG1941|consen  178 YEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYR  257 (518)
T ss_pred             hhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHH
Confidence            9998877766543    22221122     223344567778888888888877655    33221 1234456678888


Q ss_pred             ccCCHHHHHHHHHHHHH
Q 012126          388 NVGKVDEACGVLEELLK  404 (470)
Q Consensus       388 ~~g~~~~a~~~~~~~~~  404 (470)
                      ..|+.+.|+.-|+....
T Consensus       258 ~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  258 SRGDLERAFRRYEQAMG  274 (518)
T ss_pred             hcccHhHHHHHHHHHHH
Confidence            88898888887777654

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.81  E-value=7  Score=35.13  Aligned_cols=161  Identities=12%  Similarity=0.031  Sum_probs=112.2

Q ss_pred             cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH--HHH--HHHHHHHHHcCChH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDV--ESY--RILMQGLCRKSQVN  253 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~--~~ll~~~~~~~~~~  253 (470)
                      .+|.+.+|-..++++++.- +.|...++..=.+|...|+.+.-...++++... ..+|.  .+|  ..+.-++...|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d~-PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDY-PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHhC-chhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            4566778888888888754 348888888889999999999999999988765 12232  233  33444566789999


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHhcCCHhHHHHHHH
Q 012126          254 RAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK---GCNPDIVHYNTVVLGFCREGRAIDACKVLE  330 (470)
Q Consensus       254 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  330 (470)
                      +|++.-++..+.+.. |...-.++...+--.|+..++.+.+.+-...   +.-.-..-|-...-.+...+.++.|+++|+
T Consensus       193 dAEk~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            999999888876543 6666777777788889999999888775432   100111223344445677799999999998


Q ss_pred             h-chhCCCCCCH
Q 012126          331 D-MPSNGCLPNL  341 (470)
Q Consensus       331 ~-m~~~~~~p~~  341 (470)
                      . |...--+.|.
T Consensus       272 ~ei~k~l~k~Da  283 (491)
T KOG2610|consen  272 REIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHhhccch
Confidence            6 4443334444

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.42  E-value=6.4  Score=33.73  Aligned_cols=90  Identities=18%  Similarity=0.086  Sum_probs=40.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC---CCCHhhHH
Q 012126          204 YNIMMRAFCFNGDISIAYTLFNKMFER----GVMPD-VESYRILMQGLCRKSQVNRAVDLLEDMLNKGF---VPDTLSYT  275 (470)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~  275 (470)
                      +..+-+.+.+...+++|-..|.+-...    .--++ ...|...|-.+.-..|+..|...++..-+.+-   .-+..+..
T Consensus       153 ~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~le  232 (308)
T KOG1585|consen  153 YGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLE  232 (308)
T ss_pred             HHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHH
Confidence            344445555666666655444332111    00111 11233334444455566666666666433221   12344555


Q ss_pred             HHHHHHHhcCCHHHHHHHH
Q 012126          276 TLLNSLCRKKKLREAYKLL  294 (470)
Q Consensus       276 ~ll~~~~~~~~~~~a~~~~  294 (470)
                      .|+.+|- .||.+++.++.
T Consensus       233 nLL~ayd-~gD~E~~~kvl  250 (308)
T KOG1585|consen  233 NLLTAYD-EGDIEEIKKVL  250 (308)
T ss_pred             HHHHHhc-cCCHHHHHHHH
Confidence            5665553 35555554443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.08  E-value=1.3  Score=39.12  Aligned_cols=104  Identities=13%  Similarity=0.156  Sum_probs=73.6

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCC---CccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCH
Q 012126          125 HYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFN---CKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNT  201 (470)
Q Consensus       125 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  201 (470)
                      |.+.+..+...++..-....+++++...+-++....   ..|+ .+-...++.+.+.  +.++++.++..-++.|+.||.
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~-~~~~~~irlllky--~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRN-WTIHTWIRLLLKY--DPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcc-ccHHHHHHHHHcc--ChHHHHHHHhCcchhccccch
Confidence            445555556666666666778888888887776421   1121 1223334444322  367889999888999999999


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERG  231 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  231 (470)
                      .+++.+|+.+.+.+++.+|.++.-.|....
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            999999999999999999999888776653

>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=91.92  E-value=3.3  Score=34.10  Aligned_cols=63  Identities=10%  Similarity=0.145  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPD--VESYRILMQGLCRKSQVNRAVDLLEDMLN  264 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  264 (470)
                      ..+..+...|++.|+.+.|.+.|.++.+....+.  ...+-.++......+++..+.....+...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4566777888888888888888888777644332  33455666777777787777777666543

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.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=91.90  E-value=9  Score=34.29  Aligned_cols=223  Identities=12%  Similarity=0.113  Sum_probs=120.1

Q ss_pred             HhcCChhHHHHHHHHHHHCC--CCCCH------HHHHHHHHHHHHcC-ChHHHHHHHHHHHhC--------CCCCC----
Q 012126          212 CFNGDISIAYTLFNKMFERG--VMPDV------ESYRILMQGLCRKS-QVNRAVDLLEDMLNK--------GFVPD----  270 (470)
Q Consensus       212 ~~~g~~~~a~~~~~~m~~~~--~~p~~------~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~----  270 (470)
                      .+.|+++.|..++.+.....  ..|+.      ..|+.-.. ....+ +++.|..++++..+.        ...++    
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~-l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKS-LLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHH-HHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            35677777777776665432  12211      12222222 23344 777776666654432        11222    


Q ss_pred             -HhhHHHHHHHHHhcCCHH---HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHH
Q 012126          271 -TLSYTTLLNSLCRKKKLR---EAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRT  346 (470)
Q Consensus       271 -~~~~~~ll~~~~~~~~~~---~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  346 (470)
                       ..+...++.+|...+..+   +|..+++.+.... .-.+..+-.-+..+.+.++.+++.+.+..|... +.-....+..
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~-~~~~e~~~~~  160 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS-VDHSESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh-cccccchHHH
Confidence             245667788888777654   5666666775442 112445555567777789999999999999886 2223445555


Q ss_pred             HHHHH---HhcCChHHHHHHHHHHHHCCCCCCHH-HHH-HHHHH---HHccCC------HHHHHHHHHHHHH-CCCCCCH
Q 012126          347 LVGGL---CDQGMFDVAKKYMQLMISKGFSPHFS-VSH-ALIKG---FCNVGK------VDEACGVLEELLK-AGEAPHE  411 (470)
Q Consensus       347 li~~~---~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~-~li~~---~~~~g~------~~~a~~~~~~~~~-~~~~p~~  411 (470)
                      ++..+   ... ....+...+..++...+.|... ... .++..   ....++      ++...++++...+ .+.+.+.
T Consensus       161 ~l~~i~~l~~~-~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~  239 (278)
T PF08631_consen  161 ILHHIKQLAEK-SPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSA  239 (278)
T ss_pred             HHHHHHHHHhh-CcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCH
Confidence            55544   333 3456666666666554555543 111 11111   122211      4455555553322 2233333


Q ss_pred             HH---HHHHH----HHHHcCCcHHHHHHHHHHHH
Q 012126          412 DT---WVMIV----PQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       412 ~~---~~~l~----~~~~~~g~~~~a~~~~~~m~  438 (470)
                      .+   ..+++    ..+.+.+++++|.+.++-.+
T Consensus       240 ~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  240 EAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            33   22333    23567899999999988655

It is also involved in sporulation [].

>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=91.55  E-value=5.3  Score=32.85  Aligned_cols=97  Identities=7%  Similarity=-0.039  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012126          237 ESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPD--TLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVL  314 (470)
Q Consensus       237 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  314 (470)
                      ..+..+...|++.|+.+.|.+.|.++.+....+.  ...+-.+|+...-.+++..+...+.+....-..........=+.
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            4566777888888888888888888877644433  23455667777778888888777766644311111111111111


Q ss_pred             -----HHHhcCCHhHHHHHHHhch
Q 012126          315 -----GFCREGRAIDACKVLEDMP  333 (470)
Q Consensus       315 -----~~~~~~~~~~a~~~~~~m~  333 (470)
                           .+...+++.+|-+.|-+..
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence                 1234667777777766654

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.25  E-value=0.54  Score=26.69  Aligned_cols=26  Identities=19%  Similarity=0.208  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHH
Q 012126          378 VSHALIKGFCNVGKVDEACGVLEELL  403 (470)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~~~  403 (470)
                      +|+.|...|.+.|++++|.++|++.+
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            36677788888888888888888754

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=91.06  E-value=16  Score=35.64  Aligned_cols=124  Identities=10%  Similarity=-0.000  Sum_probs=84.6

Q ss_pred             CCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC--CCCHHHHHH
Q 012126          304 PDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF--SPHFSVSHA  381 (470)
Q Consensus       304 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~  381 (470)
                      ++..+|..-+.-....|+++.+.-+|+...-. +..-...|-..+.-....|+.+-|..++....+--.  .|......+
T Consensus       295 aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a  373 (577)
T KOG1258|consen  295 AQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEA  373 (577)
T ss_pred             HHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHH
Confidence            34567888888888999999999999887652 333445566666666667999999888877766432  334444444


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHcCCcHHHHHH
Q 012126          382 LIKGFCNVGKVDEACGVLEELLKAGEAPHED-TWVMIVPQICAGEEMEKLGE  432 (470)
Q Consensus       382 li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~a~~  432 (470)
                      .+  .-..|+++.|..+++...+.-  |+.. .-..-+....+.|+.+.+..
T Consensus       374 ~f--~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~  421 (577)
T KOG1258|consen  374 RF--EESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANY  421 (577)
T ss_pred             HH--HHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhH
Confidence            44  335689999999999997753  5543 22233445677888888873

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=90.68  E-value=16  Score=34.99  Aligned_cols=177  Identities=14%  Similarity=0.074  Sum_probs=95.8

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012126          235 DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVL  314 (470)
Q Consensus       235 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  314 (470)
                      |.....+++..+..+-...-++.+-.+|...|-  +-..|..++.+|... ..+.-..+|+++.+..+. |++.-..|..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e--~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGE--SKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhcc--hHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHH
Confidence            555556666666666666666666666666542  555666677777666 445566666766665332 3333333333


Q ss_pred             HHHhcCCHhHHHHHHHhchhCCCC-----CCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHc
Q 012126          315 GFCREGRAIDACKVLEDMPSNGCL-----PNLVSYRTLVGGLCDQGMFDVAKKYMQLMIS-KGFSPHFSVSHALIKGFCN  388 (470)
Q Consensus       315 ~~~~~~~~~~a~~~~~~m~~~~~~-----p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~  388 (470)
                      -| ..++...+..+|.++...-++     .-...|..+...-  ..+.+....+..++.. .|...-...+.-+-.-|..
T Consensus       141 ~y-Ekik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~  217 (711)
T COG1747         141 KY-EKIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HH-HHhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            33 336666666666665543211     0112344443311  2455555555555544 2333334455555566667


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          389 VGKVDEACGVLEELLKAGEAPHEDTWVMIVP  419 (470)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  419 (470)
                      ..++++|.+++...++.+-+ |...-..++.
T Consensus       218 ~eN~~eai~Ilk~il~~d~k-~~~ar~~~i~  247 (711)
T COG1747         218 NENWTEAIRILKHILEHDEK-DVWARKEIIE  247 (711)
T ss_pred             ccCHHHHHHHHHHHhhhcch-hhhHHHHHHH
Confidence            77777777777776665422 3333344444

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.63  E-value=0.64  Score=25.66  Aligned_cols=27  Identities=11%  Similarity=0.182  Sum_probs=16.4

Q ss_pred             HHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          413 TWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       413 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      .|..+...+...|++++|++.+++.++
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            455566666666666666666666664

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 ....

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=90.60  E-value=8.8  Score=34.93  Aligned_cols=166  Identities=13%  Similarity=0.083  Sum_probs=104.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHC-CCCC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC-----CCCCHhhH
Q 012126          204 YNIMMRAFCFNGDISIAYTLFNKMFER-GVMP---DVESYRILMQGLCRKSQVNRAVDLLEDMLNKG-----FVPDTLSY  274 (470)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~  274 (470)
                      |-.+.+++-+.-++.+++.+-..-... |..|   ......++..++.-.+.++++++.|+...+..     ......++
T Consensus        86 ~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvc  165 (518)
T KOG1941|consen   86 YLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVC  165 (518)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehh
Confidence            444445554445555555544433322 3322   22344557778888889999999999876532     12245688


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCCHHHHH-----HHHHHHHhcCCHhHHHHHHHhchh----CCCCC-C
Q 012126          275 TTLLNSLCRKKKLREAYKLLCRMKVK----GCNPDIVHYN-----TVVLGFCREGRAIDACKVLEDMPS----NGCLP-N  340 (470)
Q Consensus       275 ~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~~-----~li~~~~~~~~~~~a~~~~~~m~~----~~~~p-~  340 (470)
                      ..|-..|.+..|+++|.-+.....+.    ++..=..-|.     .|.-++...|...+|.+.-++..+    .|-++ .
T Consensus       166 v~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~  245 (518)
T KOG1941|consen  166 VSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQ  245 (518)
T ss_pred             hhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHH
Confidence            99999999999999998877665432    2221111222     344467778888888887777543    34222 2


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          341 LVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      ......+.+.|...|+.+.|..-|+....
T Consensus       246 arc~~~~aDIyR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  246 ARCLLCFADIYRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHHHHHHHHHHHhcccHhHHHHHHHHHHH
Confidence            33455677788899999998888877654

>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=90.56  E-value=7.6  Score=31.01  Aligned_cols=52  Identities=21%  Similarity=0.073  Sum_probs=24.1

Q ss_pred             HccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHh
Q 012126          106 GRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLE  158 (470)
Q Consensus       106 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  158 (470)
                      .+.++.+.+..++..+.... |-.+..-..-...+...|++.+|+.+|+++.+
T Consensus        21 l~~~~~~D~e~lL~ALrvLR-P~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLR-PEFPELDLFDGWLHIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             HccCChHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            34455555555555554432 22233333333344455555555555555544

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.39  E-value=9.8  Score=32.01  Aligned_cols=179  Identities=16%  Similarity=0.093  Sum_probs=92.0

Q ss_pred             CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHH
Q 012126          180 NYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLL  259 (470)
Q Consensus       180 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  259 (470)
                      |-+..|.--|.+.....+. -..+||.|.--+...|+++.|.+.|+...+.+..-+-...|--|.. .-.|++.-|.+-+
T Consensus        79 GL~~LAR~DftQaLai~P~-m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~-YY~gR~~LAq~d~  156 (297)
T COG4785          79 GLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIAL-YYGGRYKLAQDDL  156 (297)
T ss_pred             hHHHHHhhhhhhhhhcCCC-cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceee-eecCchHhhHHHH
Confidence            3344444445555543322 3567888888888999999999999998887655343333333333 3457888888777


Q ss_pred             HHHHhCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHH-HHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCC
Q 012126          260 EDMLNKGFV-PDTLSYTTLLNSLCRKKKLREAYKLL-CRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGC  337 (470)
Q Consensus       260 ~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~-~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  337 (470)
                      ...-+.+.. |-...|--++   -..-++.+|..-+ ++..+.    |..-|...|-.|.- |+.. ...+++.+... -
T Consensus       157 ~~fYQ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~-a  226 (297)
T COG4785         157 LAFYQDDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFYL-GKIS-EETLMERLKAD-A  226 (297)
T ss_pred             HHHHhcCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHHH-hhcc-HHHHHHHHHhh-c
Confidence            666665432 2222232222   2344566665443 333333    43344433332221 1111 11122222221 0


Q ss_pred             CC-------CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 012126          338 LP-------NLVSYRTLVGGLCDQGMFDVAKKYMQLMISK  370 (470)
Q Consensus       338 ~p-------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  370 (470)
                      .-       -..||--+..-+...|+.++|..+|+-.+..
T Consensus       227 ~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         227 TDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             cchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            10       1234555555566666666666666655543

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=90.37  E-value=12  Score=33.07  Aligned_cols=135  Identities=7%  Similarity=0.133  Sum_probs=80.8

Q ss_pred             hhhHHHHHHHHHH-CCCCCCHHHHHHHHHHHHh-cC-ChhHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 012126          182 LRPAFDLFKSAHK-HGVLPNTKSYNIMMRAFCF-NG-DISIAYTLFNKMFE-RGVMPDVESYRILMQGLCRKSQVNRAVD  257 (470)
Q Consensus       182 ~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~-~g-~~~~a~~~~~~m~~-~~~~p~~~~~~~ll~~~~~~~~~~~a~~  257 (470)
                      ..+|+.+|+...- ..+--|..+...+++.... .+ ....-.++.+-+.. .|..++..+...++..++..+++.+-.+
T Consensus       144 Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~  223 (292)
T PF13929_consen  144 VVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQ  223 (292)
T ss_pred             HHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHH
Confidence            4455555552211 1233466666666665554 22 22222333333332 2456677777788888888888888888


Q ss_pred             HHHHHHhC-CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH-----HHHcCCCCCHHHHHHHHHHH
Q 012126          258 LLEDMLNK-GFVPDTLSYTTLLNSLCRKKKLREAYKLLCR-----MKVKGCNPDIVHYNTVVLGF  316 (470)
Q Consensus       258 ~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~-----m~~~~~~~~~~~~~~li~~~  316 (470)
                      ++...... +..-|...|..+|+.....|+..-...+.++     +...|+..+...-..+-..+
T Consensus       224 fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  224 FWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            88877655 5566788888888888888887777776654     23445555555444444443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.37  E-value=0.86  Score=25.22  Aligned_cols=28  Identities=7%  Similarity=0.039  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          412 DTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       412 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      .+|..+..+|...|++++|+..++++++
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            3455566666666666666666666664

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 ....

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=89.48  E-value=12  Score=31.57  Aligned_cols=163  Identities=20%  Similarity=0.114  Sum_probs=91.1

Q ss_pred             CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCC-CCHHHHH
Q 012126          127 PVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVL-PNTKSYN  205 (470)
Q Consensus       127 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~  205 (470)
                      |.-+.+||.|.-.+...|+++.|.+.|+...+.+..-+-...|.-+..+  -.|+++.|.+-|.+.-+.+.. |=...|-
T Consensus        96 P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~Y--Y~gR~~LAq~d~~~fYQ~D~~DPfR~LWL  173 (297)
T COG4785          96 PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALY--YGGRYKLAQDDLLAFYQDDPNDPFRSLWL  173 (297)
T ss_pred             CCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeee--ecCchHhhHHHHHHHHhcCCCChHHHHHH
Confidence            4456788888888888888888888888887754333334444444444  355677777777666654422 2233444


Q ss_pred             HHHHHHHhcCChhHHHH-HHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC------CCHhhHHHHH
Q 012126          206 IMMRAFCFNGDISIAYT-LFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV------PDTLSYTTLL  278 (470)
Q Consensus       206 ~li~~~~~~g~~~~a~~-~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~~ll  278 (470)
                      .+..   ..-++.+|.. +.++....    |..-|...|..|.--.-.+  ..+++.+....-.      .-..||--|.
T Consensus       174 Yl~E---~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~yLgkiS~--e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~  244 (297)
T COG4785         174 YLNE---QKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFYLGKISE--ETLMERLKADATDNTSLAEHLTETYFYLG  244 (297)
T ss_pred             HHHH---hhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHHHhhccH--HHHHHHHHhhccchHHHHHHHHHHHHHHH
Confidence            4333   3345555544 33333333    5455555444433211111  1122222221110      1245677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 012126          279 NSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       279 ~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      .-+...|+.++|..+|+-....
T Consensus       245 K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         245 KYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HHHhccccHHHHHHHHHHHHHH
Confidence            8888888888888888877765

>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=89.23  E-value=9.9  Score=30.37  Aligned_cols=52  Identities=17%  Similarity=0.149  Sum_probs=30.9

Q ss_pred             HcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHC
Q 012126          142 ESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKH  195 (470)
Q Consensus       142 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~  195 (470)
                      ..++.+++..++..+.-  ..|.......+-..+.-.+|++.+|..+|+++...
T Consensus        22 ~~~~~~D~e~lL~ALrv--LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRV--LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             ccCChHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            45566666666666655  34555555555555555566667777777666554

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.22  E-value=1.1  Score=24.85  Aligned_cols=27  Identities=19%  Similarity=0.257  Sum_probs=15.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          378 VSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      +|..+..+|...|++++|+..|++.++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            455555666666666666666666655

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.09  E-value=7.6  Score=34.58  Aligned_cols=127  Identities=10%  Similarity=0.139  Sum_probs=73.9

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhC----------CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCCCHHH
Q 012126          242 LMQGLCRKSQVNRAVDLLEDMLNK----------GFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKG---CNPDIVH  308 (470)
Q Consensus       242 ll~~~~~~~~~~~a~~~~~~~~~~----------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~~  308 (470)
                      |.++|.....++.-......+-..          |......+...++..-....+++.++..+-.+....   ..++.. 
T Consensus        25 LsS~fs~e~~w~~r~~~~~kla~~g~~~~kkF~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~-  103 (418)
T KOG4570|consen   25 LSSAFSDEHKWEAREKEHYKLADLGSLMDKKFERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT-  103 (418)
T ss_pred             hHHHhhhhhhhhHHHHHHHHHhcccccchhhhhcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc-
Confidence            455666665665544444333222          233344555556665555667777777776665431   111111 


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 012126          309 YNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK  370 (470)
Q Consensus       309 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  370 (470)
                      -.+.++.+ -.-+.++++.++..=...|+-||..+++.+++.+.+.+++.+|..+...|+..
T Consensus       104 ~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  104 IHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHH-HccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            11223322 33456677777777777777778888888888888777777777777666654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=88.99  E-value=0.62  Score=26.07  Aligned_cols=24  Identities=17%  Similarity=0.355  Sum_probs=17.2

Q ss_pred             CCCHHHHHHHHHHHHHcCCchhHH
Q 012126          127 PVTPSLFTYLIKIYAESNLPDRAL  150 (470)
Q Consensus       127 ~~~~~~~~~li~~~~~~g~~~~A~  150 (470)
                      |-+..+|+.+...|...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            556777777777777777777764

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.77  E-value=27  Score=34.86  Aligned_cols=275  Identities=13%  Similarity=0.055  Sum_probs=142.7

Q ss_pred             chhHHHHHHHHHhCCCccCHHHHHHHHHHH----HhcCCChhhHHHHHHHHHH-------CCCCCCHHHHHHHHHHHHhc
Q 012126          146 PDRALKTFRSMLEFNCKPLPKQLNRILELL----VTHRNYLRPAFDLFKSAHK-------HGVLPNTKSYNIMMRAFCFN  214 (470)
Q Consensus       146 ~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~li~~~~~~  214 (470)
                      ...|.++++...+.|..   ..-..+-..+    .....+.+.|+.+|+...+       .|   +....+.+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g~~---~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS---EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhcch---HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            35677777777665522   1111111111    1133457888888888766       44   333455666666654


Q ss_pred             C-----ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH-cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH----hc
Q 012126          215 G-----DISIAYTLFNKMFERGVMPDVESYRILMQGLCR-KSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLC----RK  284 (470)
Q Consensus       215 g-----~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~----~~  284 (470)
                      .     +.+.|..++...-+.|.+ +...+...+..... ..+...|.++|....+.|.. .  .+-.+..+|.    -.
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~--A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-L--AIYRLALCYELGLGVE  377 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-H--HHHHHHHHHHhCCCcC
Confidence            3     567788888888777643 44333222222222 24577888888888888753 2  2222222222    23


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHH---Hh----cCCh
Q 012126          285 KKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGL---CD----QGMF  357 (470)
Q Consensus       285 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~---~~----~g~~  357 (470)
                      .+...|..++.+.-+.| .|...--...+..+.. ++++.+.-.+..+.+.|.+--...-..++...   ..    ..+.
T Consensus       378 r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~~q~~a~~l~~~~~~~~~~~~~~~~~  455 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEVAQSNAAYLLDQSEEDLFSRGVISTL  455 (552)
T ss_pred             CCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhHHhhHHHHHHHhccccccccccccch
Confidence            47888888888888876 2222222222333333 67777776666666655321111111111110   01    1244


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----cCCcHHH
Q 012126          358 DVAKKYMQLMISKGFSPHFSVSHALIKGFCNV----GKVDEACGVLEELLKAGEAPHEDTWVMIVPQIC----AGEEMEK  429 (470)
Q Consensus       358 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~----~~g~~~~  429 (470)
                      +.+...+......|   +......+-+.|...    .+++.|...+......+   ....| .+...+-    -.. +..
T Consensus       456 ~~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~---~~~~~-nlg~~~e~g~g~~~-~~~  527 (552)
T KOG1550|consen  456 ERAFSLYSRAAAQG---NADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG---AQALF-NLGYMHEHGEGIKV-LHL  527 (552)
T ss_pred             hHHHHHHHHHHhcc---CHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh---hHHHh-hhhhHHhcCcCcch-hHH
Confidence            55555555555444   444555555555433    24677777777665554   22222 2222222    223 667


Q ss_pred             HHHHHHHHHHc
Q 012126          430 LGEVLNEIVKV  440 (470)
Q Consensus       430 a~~~~~~m~~~  440 (470)
                      |.++++...+.
T Consensus       528 a~~~~~~~~~~  538 (552)
T KOG1550|consen  528 AKRYYDQASEE  538 (552)
T ss_pred             HHHHHHHHHhc
Confidence            77777776654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=88.73  E-value=0.64  Score=26.03  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=13.3

Q ss_pred             CHHHHHHHHHHHHhcCChhHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAY  221 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~  221 (470)
                      |...|+.+...|...|++++|+
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            5556666666666666666554

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=88.53  E-value=3.8  Score=29.30  Aligned_cols=44  Identities=16%  Similarity=0.061  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhc
Q 012126          289 EAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDM  332 (470)
Q Consensus       289 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  332 (470)
                      ++.+-++.+....+.|++....+.+++|.+.+++..|.++|+..
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~v   68 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAI   68 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            33333334433344444444444444444444444444444433

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=88.47  E-value=11  Score=29.73  Aligned_cols=52  Identities=17%  Similarity=0.072  Sum_probs=27.3

Q ss_pred             ccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhC
Q 012126          107 RAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEF  159 (470)
Q Consensus       107 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  159 (470)
                      ...+.+++..+++.+.-.. |..+..-..-...+...|++++|+.+|+++.+.
T Consensus        22 ~~~d~~D~e~lLdALrvLr-P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLR-PNLKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhC-CCccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            3455666666666554442 223333333344455566666666666666553

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.31  E-value=13  Score=30.69  Aligned_cols=56  Identities=9%  Similarity=0.003  Sum_probs=25.4

Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcc
Q 012126          384 KGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      +.....|.+|+|+..++...+.+.  .......-.+.+...|+-++|..-|++.++.+
T Consensus       134 rvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         134 RVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            334445555555555554433221  11122223344555555555555555555443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.22  E-value=30  Score=34.61  Aligned_cols=181  Identities=17%  Similarity=0.162  Sum_probs=84.4

Q ss_pred             hHHHHHHHHHhhcCCCCCCCHHHHHHHHHH---HHccCCchHHHHHHHHHhh-------CCCCCCHHHHHHHHHHHHHcC
Q 012126           75 PLLAKEIFDYASRQPNFRHSNSTYLILILK---LGRAKYFSLIDDILITLKS-------EHYPVTPSLFTYLIKIYAESN  144 (470)
Q Consensus        75 ~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~---~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~li~~~~~~g  144 (470)
                      ...|.+.++.+...+..  ........+..   .+..++.+.|...+....+       .+   .+.....+..+|.+..
T Consensus       228 ~~~a~~~~~~~a~~g~~--~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~  302 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS--EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGL  302 (552)
T ss_pred             hhHHHHHHHHHHhhcch--HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCC
Confidence            45677777766554422  22222222222   3456777788877777765       33   2334555666665533


Q ss_pred             -----CchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcC---CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH--hc
Q 012126          145 -----LPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHR---NYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFC--FN  214 (470)
Q Consensus       145 -----~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~--~~  214 (470)
                           +.+.|+.++...-+.|. |+....   +..+...+   .+...|.++|...-+.|.. ...-+..++....  ..
T Consensus       303 ~~~~~d~~~A~~~~~~aA~~g~-~~a~~~---lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  303 GVEKIDYEKALKLYTKAAELGN-PDAQYL---LGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVE  377 (552)
T ss_pred             CCccccHHHHHHHHHHHHhcCC-chHHHH---HHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcC
Confidence                 34456677666665542 222211   11221111   2355666666666666532 2211111111111  23


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC
Q 012126          215 GDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGF  267 (470)
Q Consensus       215 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  267 (470)
                      .+...|..++.+..+.| .|...--...+..+.. +..+.+.-.+..+...|.
T Consensus       378 r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~  428 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGY  428 (552)
T ss_pred             CCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhh
Confidence            35566666666666665 2221111122222222 555555555555554443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=88.08  E-value=18  Score=31.98  Aligned_cols=60  Identities=17%  Similarity=0.072  Sum_probs=43.9

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012126          238 SYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMK  298 (470)
Q Consensus       238 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  298 (470)
                      +++.....|..+|.+.+|.++.+.....+. .+...+-.|+..++..||--.+..-++++.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldp-L~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDP-LSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcCh-hhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            344556677888888888888888777653 377778888888888888777777766664

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=88.07  E-value=22  Score=32.93  Aligned_cols=64  Identities=22%  Similarity=0.153  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          341 LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSP---HFSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      ..+|..++..+.+.|.++.|...+..+.+.+...   ...+...........|+.++|...+++.++
T Consensus       146 ~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  146 AETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555555666666655555555432110   222333334444555555555555555444

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=87.95  E-value=36  Score=35.20  Aligned_cols=231  Identities=14%  Similarity=0.032  Sum_probs=126.7

Q ss_pred             HHHHHHHHHHcCCchhHHHHHHHHHhCCCccC-------HHHHHHHHHHHHhcCCChhhHHHHHHHHHHC----CCCCCH
Q 012126          133 FTYLIKIYAESNLPDRALKTFRSMLEFNCKPL-------PKQLNRILELLVTHRNYLRPAFDLFKSAHKH----GVLPNT  201 (470)
Q Consensus       133 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~-------~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~  201 (470)
                      .-.-+......+++++|..+..++...-..|+       ...++.+-.......|+.+++.++-+.....    -..+..
T Consensus       418 vll~aW~~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~  497 (894)
T COG2909         418 VLLQAWLLASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRI  497 (894)
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhh
Confidence            33344455668899999999988765322221       2345666666666788889999988877653    123456


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHH-----HHHHHcCCh--HHHHHHHHHHHhCC---C---C
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILM-----QGLCRKSQV--NRAVDLLEDMLNKG---F---V  268 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll-----~~~~~~~~~--~~a~~~~~~~~~~~---~---~  268 (470)
                      ..+..+..+..-.|++++|..+..+..+..-.-+...+..+.     ..+...|+.  .+.+..|.......   .   .
T Consensus       498 ~~~sv~~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~  577 (894)
T COG2909         498 VALSVLGEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHE  577 (894)
T ss_pred             hhhhhhhHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccch
Confidence            677788888889999999998887765542222333333222     234455632  22233333322210   0   1


Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHH----HHHHHHcCCCCCHHH--HHHHHHHHHhcCCHhHHHHHHHhchhCCCCC---
Q 012126          269 PDTLSYTTLLNSLCRKKKLREAYKL----LCRMKVKGCNPDIVH--YNTVVLGFCREGRAIDACKVLEDMPSNGCLP---  339 (470)
Q Consensus       269 ~~~~~~~~ll~~~~~~~~~~~a~~~----~~~m~~~~~~~~~~~--~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p---  339 (470)
                      +-..++..++.++.+   .+.+..-    ++-.......|-..-  +..|+......|+.++|...++++......+   
T Consensus       578 f~~~~r~~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~  654 (894)
T COG2909         578 FLVRIRAQLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYH  654 (894)
T ss_pred             hHHHHHHHHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCC
Confidence            122344455555554   3333322    222222211111121  2256677888999999999888876543322   


Q ss_pred             -CHHHHHHHHHH--HHhcCChHHHHHHHHH
Q 012126          340 -NLVSYRTLVGG--LCDQGMFDVAKKYMQL  366 (470)
Q Consensus       340 -~~~~~~~li~~--~~~~g~~~~a~~~~~~  366 (470)
                       +...-...+..  -...|+.+.+.....+
T Consensus       655 ~~~~a~~~~v~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         655 VDYLAAAYKVKLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             chHHHHHHHhhHHHhcccCCHHHHHHHHHh
Confidence             22222222222  2356777777666554

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.61  E-value=35  Score=34.68  Aligned_cols=104  Identities=7%  Similarity=-0.090  Sum_probs=63.1

Q ss_pred             HHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC
Q 012126           66 QKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNL  145 (470)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  145 (470)
                      .+.+.+.+.+++|+.+-+.......-..........|..+.-.|++++|-...-.|...    +...|..-+..++..++
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~~~  438 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAELDQ  438 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhccccc
Confidence            35567778888888887765433211113456777788888889999988888777543    45566666666666665


Q ss_pred             chhHHHHHHHHHhCCCccCHHHHHHHHHHHH
Q 012126          146 PDRALKTFRSMLEFNCKPLPKQLNRILELLV  176 (470)
Q Consensus       146 ~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~  176 (470)
                      ....   +.-+....-..+...|..+|..+.
T Consensus       439 l~~I---a~~lPt~~~rL~p~vYemvLve~L  466 (846)
T KOG2066|consen  439 LTDI---APYLPTGPPRLKPLVYEMVLVEFL  466 (846)
T ss_pred             cchh---hccCCCCCcccCchHHHHHHHHHH
Confidence            4432   222332222234455666555554

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=87.53  E-value=44  Score=35.79  Aligned_cols=79  Identities=19%  Similarity=0.213  Sum_probs=40.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcC
Q 012126          278 LNSLCRKKKLREAYKLLCRMKVKGCNPDIV--HYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQG  355 (470)
Q Consensus       278 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  355 (470)
                      +.+|-.+|++.+|..+..++...   .+..  +-..|+.-+...++.-+|-++..+....        ....+..+++..
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~ 1040 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAK 1040 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHh
Confidence            44555556666665555555322   1111  1134555566666666666666665442        122334455555


Q ss_pred             ChHHHHHHHHHH
Q 012126          356 MFDVAKKYMQLM  367 (470)
Q Consensus       356 ~~~~a~~~~~~~  367 (470)
                      .+++|..+....
T Consensus      1041 ~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen 1041 EWEEALRVASKA 1052 (1265)
T ss_pred             HHHHHHHHHHhc
Confidence            666666655443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=87.53  E-value=1.6  Score=24.01  Aligned_cols=27  Identities=22%  Similarity=0.295  Sum_probs=16.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          378 VSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      .+..+...+...|++++|.+.|++.++
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            445555666666666666666666655

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 ....

>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=87.51  E-value=6.7  Score=32.62  Aligned_cols=71  Identities=7%  Similarity=-0.027  Sum_probs=32.5

Q ss_pred             HHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHccCCHHHH
Q 012126          324 DACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK---GFSPHFSVSHALIKGFCNVGKVDEA  395 (470)
Q Consensus       324 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a  395 (470)
                      +|.+.|-.+...+.--+......|..-|. ..+.+++..++....+.   +-.+|+.++.+|+..|.+.|+++.|
T Consensus       124 ~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  124 EALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            34444444444443333333333333232 34555555555554442   1234455555555555555555544

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=87.19  E-value=1.6  Score=25.34  Aligned_cols=28  Identities=18%  Similarity=0.133  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          412 DTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       412 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      .+++.|...|...|++++|.+++++.++
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            4667777778888888888888877754

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=87.13  E-value=9.5  Score=27.69  Aligned_cols=60  Identities=12%  Similarity=0.191  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          359 VAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVP  419 (470)
Q Consensus       359 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  419 (470)
                      +..+-++.+....+.|++.+..+.+.+|.+.+++.-|.++|+....+ +.+....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            55555666666667777777777777777777777777777766543 2222225555553

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 ....

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=86.96  E-value=13  Score=29.20  Aligned_cols=53  Identities=17%  Similarity=0.157  Sum_probs=36.9

Q ss_pred             HcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCC
Q 012126          142 ESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHG  196 (470)
Q Consensus       142 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~  196 (470)
                      ..++++++..+++.|.-  ..|.......+-..+.-.+|++.+|..+|+++.+.+
T Consensus        22 ~~~d~~D~e~lLdALrv--LrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRV--LRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHH--hCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            46777888888877765  456655555555555556777888888888887654

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=86.61  E-value=7  Score=28.03  Aligned_cols=62  Identities=15%  Similarity=0.171  Sum_probs=36.3

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          357 FDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVP  419 (470)
Q Consensus       357 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  419 (470)
                      .-++.+-++.+....+.|++.+..+-+++|-+.+++.-|.++|+....+ +..+...|..+++
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lq   84 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHH
Confidence            3345555566666666677777777777777777777777777665432 1123345554443

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.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=86.43  E-value=9.7  Score=36.02  Aligned_cols=54  Identities=15%  Similarity=0.083  Sum_probs=25.1

Q ss_pred             HhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 012126          317 CREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKG  371 (470)
Q Consensus       317 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  371 (470)
                      ...|+++.+...+...... +.....+..+++....+.|++++|..+-..|....
T Consensus       334 ~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~e  387 (831)
T PRK15180        334 SHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNE  387 (831)
T ss_pred             HHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccc
Confidence            3445555555544443221 22233444445555555555555555555554443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=86.25  E-value=11  Score=27.43  Aligned_cols=45  Identities=20%  Similarity=0.235  Sum_probs=21.6

Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          256 VDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       256 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      .+-+..+....+.|++....+.+.+|.+.+++..|.++|+.+..+
T Consensus        30 rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   30 RRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            333444444455555555555555555555555555555555443

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 ....

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=86.10  E-value=15  Score=32.27  Aligned_cols=159  Identities=11%  Similarity=0.038  Sum_probs=80.1

Q ss_pred             HHHccCCchHHHHHHHHHhhCCCCCCHH-------HHHHHHHHHHHcCCchhHHHHHHHH----HhCCCccCHHHHHHHH
Q 012126          104 KLGRAKYFSLIDDILITLKSEHYPVTPS-------LFTYLIKIYAESNLPDRALKTFRSM----LEFNCKPLPKQLNRIL  172 (470)
Q Consensus       104 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~li~~~~~~g~~~~A~~~~~~~----~~~~~~p~~~~~~~ll  172 (470)
                      ...+.+++++|+..+.++...|+..+..       +...+...|...|+...--+.....    .+..-........+++
T Consensus        12 ~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k~~KiirtLi   91 (421)
T COG5159          12 NAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTITSSREAMEDFTKPKITKIIRTLI   91 (421)
T ss_pred             HhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHHHhhHHHHHHhcchhHHHHHHHHH
Confidence            3445555666666666665555444432       2333566666666665544443322    1211112233444555


Q ss_pred             HHHHhcCCChhhHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHhcCChhHHHHHHHH----HHHCCCCCCHHHHHHHH
Q 012126          173 ELLVTHRNYLRPAFDLFKSAHKHGVLPN-----TKSYNIMMRAFCFNGDISIAYTLFNK----MFERGVMPDVESYRILM  243 (470)
Q Consensus       173 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~----m~~~~~~p~~~~~~~ll  243 (470)
                      ..+-...+.++..+.+.....+....-+     ...=..++..+.+.|.+.+|+.+...    +.+.+-+|+..+...+=
T Consensus        92 ekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~YsdalalIn~ll~ElKk~DDK~~Li~vhllE  171 (421)
T COG5159          92 EKFPYSSDSLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGKYSDALALINPLLHELKKYDDKINLITVHLLE  171 (421)
T ss_pred             HhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHhhcCccceeehhhhh
Confidence            5554455555555555555443321111     11224577888899999998876554    44445555544443332


Q ss_pred             -HHHHHcCChHHHHHHHHHH
Q 012126          244 -QGLCRKSQVNRAVDLLEDM  262 (470)
Q Consensus       244 -~~~~~~~~~~~a~~~~~~~  262 (470)
                       .+|....+..++..-+...
T Consensus       172 SKvyh~irnv~KskaSLTaA  191 (421)
T COG5159         172 SKVYHEIRNVSKSKASLTAA  191 (421)
T ss_pred             HHHHHHHHhhhhhhhHHHHH
Confidence             3455555555554444433

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=85.88  E-value=34  Score=32.93  Aligned_cols=78  Identities=15%  Similarity=0.168  Sum_probs=36.5

Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 012126          182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLED  261 (470)
Q Consensus       182 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  261 (470)
                      ++-++.+..+|...|  -+...|..++.+|... .-+.-..+++++.+..+. |++.-..|..-|-+ ++.+.+..+|.+
T Consensus        82 ~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~~yEk-ik~sk~a~~f~K  156 (711)
T COG1747          82 NQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELADKYEK-IKKSKAAEFFGK  156 (711)
T ss_pred             HHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHHHHHH-hchhhHHHHHHH
Confidence            444555555555544  2445555555555555 334445555555554432 22222333333333 555555555555


Q ss_pred             HHh
Q 012126          262 MLN  264 (470)
Q Consensus       262 ~~~  264 (470)
                      +..
T Consensus       157 a~y  159 (711)
T COG1747         157 ALY  159 (711)
T ss_pred             HHH
Confidence            443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.83  E-value=17  Score=29.43  Aligned_cols=140  Identities=15%  Similarity=0.130  Sum_probs=84.1

Q ss_pred             CHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHH-HHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHH-HHHHH
Q 012126           94 SNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSL-FTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPK-QLNRI  171 (470)
Q Consensus        94 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~-~~~~l  171 (470)
                      +...|..-+. +++.+..++|..-|..+.+.|...-+.. .-......+..|+...|...|+++-.....|-.. ....+
T Consensus        58 sgd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            3445555444 5666777888888888877765433332 2223444566788888888888877654444332 11111


Q ss_pred             HH-HHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 012126          172 LE-LLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMP  234 (470)
Q Consensus       172 l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  234 (470)
                      -. .+....|.++.+....+-+-..+.+.-...-..|.-+-.+.|++..|.++|..+......|
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            11 1222455567766666666554443344455667777778899999999998877643333

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.81  E-value=2.2  Score=24.73  Aligned_cols=28  Identities=32%  Similarity=0.457  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          377 SVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       377 ~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      .+++.+...|...|++++|..++++.++
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            4677788888888888888888887754

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=85.75  E-value=9.7  Score=31.71  Aligned_cols=72  Identities=13%  Similarity=0.052  Sum_probs=28.8

Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCChHHH
Q 012126          183 RPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFER---GVMPDVESYRILMQGLCRKSQVNRA  255 (470)
Q Consensus       183 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~~~~~ll~~~~~~~~~~~a  255 (470)
                      +.|...|-++...+.--++.....|...|. ..+.+++..++.+..+.   +-.+|...+..|+..+.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            444444444444333223333333333222 34444444444443332   1233444444444444444444443

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=85.68  E-value=25  Score=31.18  Aligned_cols=138  Identities=10%  Similarity=0.095  Sum_probs=87.7

Q ss_pred             CChhHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHH-cCC-hHHHHHHHHHHHh-CCCCCCHhhHHHHHHHHHhcCCHHHH
Q 012126          215 GDISIAYTLFNKMFE-RGVMPDVESYRILMQGLCR-KSQ-VNRAVDLLEDMLN-KGFVPDTLSYTTLLNSLCRKKKLREA  290 (470)
Q Consensus       215 g~~~~a~~~~~~m~~-~~~~p~~~~~~~ll~~~~~-~~~-~~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a  290 (470)
                      ..+.+|+++|+.... ..+--|..+...+++.... .+. ...-.++.+.+.. .+-.++..+...+++.+++.+++.+-
T Consensus       142 ~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl  221 (292)
T PF13929_consen  142 KIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKL  221 (292)
T ss_pred             HHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHH
Confidence            445566677663221 2344477777777776655 222 2222233333332 23456777788888888889999988


Q ss_pred             HHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHh-----chhCCCCCCHHHHHHHHHHHH
Q 012126          291 YKLLCRMKVK-GCNPDIVHYNTVVLGFCREGRAIDACKVLED-----MPSNGCLPNLVSYRTLVGGLC  352 (470)
Q Consensus       291 ~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~-----m~~~~~~p~~~~~~~li~~~~  352 (470)
                      .++++..... +..-|...|..+|....+.|+..-...+.++     +.+.|+..+...-..+-..+.
T Consensus       222 ~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~  289 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFK  289 (292)
T ss_pred             HHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHH
Confidence            8888887655 5556778888899988899988877777765     345566666665555444443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.64  E-value=14  Score=36.14  Aligned_cols=131  Identities=14%  Similarity=0.095  Sum_probs=86.8

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 012126          239 YRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCR  318 (470)
Q Consensus       239 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  318 (470)
                      .+.++..+.+.|-.++|+++-       ..||. -|    +...+.|+++.|.++..+..      +..-|..|.++...
T Consensus       617 rt~va~Fle~~g~~e~AL~~s-------~D~d~-rF----elal~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~  678 (794)
T KOG0276|consen  617 RTKVAHFLESQGMKEQALELS-------TDPDQ-RF----ELALKLGRLDIAFDLAVEAN------SEVKWRQLGDAALS  678 (794)
T ss_pred             hhhHHhHhhhccchHhhhhcC-------CChhh-hh----hhhhhcCcHHHHHHHHHhhc------chHHHHHHHHHHhh
Confidence            344555566666655555432       22222 22    34456788888887766643      56778899999999


Q ss_pred             cCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 012126          319 EGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGV  398 (470)
Q Consensus       319 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  398 (470)
                      .+++..|.+.|.....         |..|+-.+...|+-+....+-....+.|. .     |.-..+|...|+++++.++
T Consensus       679 ~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~-~-----N~AF~~~~l~g~~~~C~~l  743 (794)
T KOG0276|consen  679 AGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK-N-----NLAFLAYFLSGDYEECLEL  743 (794)
T ss_pred             cccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc-c-----chHHHHHHHcCCHHHHHHH
Confidence            9999999988887655         44566667777877766666666666652 2     3334456678999999888


Q ss_pred             HHHH
Q 012126          399 LEEL  402 (470)
Q Consensus       399 ~~~~  402 (470)
                      +.+-
T Consensus       744 Li~t  747 (794)
T KOG0276|consen  744 LIST  747 (794)
T ss_pred             HHhc
Confidence            7654

>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=84.36  E-value=2.9  Score=22.92  Aligned_cols=29  Identities=7%  Similarity=0.052  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          412 DTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       412 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      .+|..+...|...|++++|.+.|++.++.
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            35667777888888888888888888753

...

>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=84.06  E-value=0.41  Score=37.82  Aligned_cols=47  Identities=2%  Similarity=0.027  Sum_probs=17.4

Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHH
Q 012126          212 CFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDL  258 (470)
Q Consensus       212 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  258 (470)
                      .+.+.++....+++.+...+...+....+.++..|++.+..++..++
T Consensus        18 ~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~   64 (143)
T PF00637_consen   18 EERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEF   64 (143)
T ss_dssp             TTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHT
T ss_pred             HhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHH
Confidence            33334444444444443333222333334444444444333333333

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.

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=83.95  E-value=30  Score=30.67  Aligned_cols=60  Identities=12%  Similarity=0.063  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 012126          343 SYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELL  403 (470)
Q Consensus       343 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  403 (470)
                      +++.....|...|.+.+|.++.+.....+ +.+...+-.++..+...|+--.|.+-++.+.
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            34445566777778888887777777653 4566667777777777777666666666553

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=83.70  E-value=18  Score=30.05  Aligned_cols=95  Identities=13%  Similarity=0.143  Sum_probs=67.2

Q ss_pred             HHHHhcCCHhHHHHHHHhchhCCCCCCH-----HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 012126          314 LGFCREGRAIDACKVLEDMPSNGCLPNL-----VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCN  388 (470)
Q Consensus       314 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~-----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  388 (470)
                      +-+...|++++|..-|...++. +++..     ..|..-..++.+.+.++.|+.-..+.++.+. .......--..+|.+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~p-ty~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNP-TYEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCc-hhHHHHHHHHHHHHh
Confidence            4477899999999999998886 33332     3344445677888999999888888877541 122222333457888


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHH
Q 012126          389 VGKVDEACGVLEELLKAGEAPHED  412 (470)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~p~~~  412 (470)
                      ...+++|++=|+++++..  |...
T Consensus       181 ~ek~eealeDyKki~E~d--Ps~~  202 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILESD--PSRR  202 (271)
T ss_pred             hhhHHHHHHHHHHHHHhC--cchH
Confidence            899999999999998854  5544

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=82.94  E-value=10  Score=31.90  Aligned_cols=56  Identities=18%  Similarity=0.164  Sum_probs=29.5

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 012126          241 ILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRM  297 (470)
Q Consensus       241 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m  297 (470)
                      .-++.+.+.+.+.+++...++-++..+. |...-..++..+|-.|++++|..-++-.
T Consensus         6 ~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~   61 (273)
T COG4455           6 DTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLA   61 (273)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHH
Confidence            3344455555555666555555554332 4444455555566666666665555444

>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=82.94  E-value=0.62  Score=36.78  Aligned_cols=86  Identities=10%  Similarity=0.120  Sum_probs=54.0

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 012126          242 LMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGR  321 (470)
Q Consensus       242 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  321 (470)
                      ++..+.+.+.++....+++.+...+...+....+.++..|++.++.+...++++..       +..-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcch
Confidence            45556666777777777777776665556777788888888877767777666621       11223445666666666


Q ss_pred             HhHHHHHHHhchh
Q 012126          322 AIDACKVLEDMPS  334 (470)
Q Consensus       322 ~~~a~~~~~~m~~  334 (470)
                      ++++.-++.++..
T Consensus        86 ~~~a~~Ly~~~~~   98 (143)
T PF00637_consen   86 YEEAVYLYSKLGN   98 (143)
T ss_dssp             HHHHHHHHHCCTT
T ss_pred             HHHHHHHHHHccc
Confidence            6666666666543

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.

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=82.57  E-value=4.8  Score=27.58  Aligned_cols=47  Identities=4%  Similarity=-0.019  Sum_probs=29.9

Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHcCCcHHHHHHHH
Q 012126          388 NVGKVDEACGVLEELLKAGEAPHE--DTWVMIVPQICAGEEMEKLGEVL  434 (470)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~a~~~~  434 (470)
                      ..+..++|+..|...++.-..+..  .++..++.+|+..|++++++++.
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            556677777777777665333221  25566777777777777776653

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=81.46  E-value=3.1  Score=24.95  Aligned_cols=25  Identities=20%  Similarity=0.232  Sum_probs=16.8

Q ss_pred             HHHHHHHcCCchhHHHHHHHHHhCC
Q 012126          136 LIKIYAESNLPDRALKTFRSMLEFN  160 (470)
Q Consensus       136 li~~~~~~g~~~~A~~~~~~~~~~~  160 (470)
                      |..+|...|+.+.|.++++++...|
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC
Confidence            5566777777777777777766543

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=81.07  E-value=73  Score=33.08  Aligned_cols=225  Identities=15%  Similarity=0.025  Sum_probs=120.4

Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCH-------HHHHHHHH-HHHHcCChHHHHHHHHHHHhC----CCCCCHhhHHHHHH
Q 012126          212 CFNGDISIAYTLFNKMFERGVMPDV-------ESYRILMQ-GLCRKSQVNRAVDLLEDMLNK----GFVPDTLSYTTLLN  279 (470)
Q Consensus       212 ~~~g~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~-~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~ll~  279 (470)
                      ....++++|..+..++...-..|+.       ..++.+-. .....|++++|+++-+.....    -..+....+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            3568899999988887654222221       12333322 233468889999888776653    22345666777778


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHH---HH--HHHHhcCCHh--HHHHHHHhchhC--CCC----CCHHHHHH
Q 012126          280 SLCRKKKLREAYKLLCRMKVKGCNPDIVHYNT---VV--LGFCREGRAI--DACKVLEDMPSN--GCL----PNLVSYRT  346 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~---li--~~~~~~~~~~--~a~~~~~~m~~~--~~~----p~~~~~~~  346 (470)
                      +..-.|++++|..+..+..+..-.-++..+..   +.  ..+...|+..  +....+......  +-+    +-..++..
T Consensus       506 a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~  585 (894)
T COG2909         506 AAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQ  585 (894)
T ss_pred             HHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHH
Confidence            88889999999999877655422224433332   22  2345666333  333333333222  011    12234444


Q ss_pred             HHHHHHhc-CChHHHHHHHHHHHHCCCCCCHHHH--HHHHHHHHccCCHHHHHHHHHHHHHCCCC----CCHHHHHHHHH
Q 012126          347 LVGGLCDQ-GMFDVAKKYMQLMISKGFSPHFSVS--HALIKGFCNVGKVDEACGVLEELLKAGEA----PHEDTWVMIVP  419 (470)
Q Consensus       347 li~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~--~~li~~~~~~g~~~~a~~~~~~~~~~~~~----p~~~~~~~l~~  419 (470)
                      ++.++.+. +...++..-+.--......+-...+  ..|+......|++++|...++++......    ++..+-...++
T Consensus       586 ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v~  665 (894)
T COG2909         586 LLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKVK  665 (894)
T ss_pred             HHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHhh
Confidence            44444441 1122222222222222212222222  36778888999999999999988654322    23223333333


Q ss_pred             H--HHcCCcHHHHHHHHHH
Q 012126          420 Q--ICAGEEMEKLGEVLNE  436 (470)
Q Consensus       420 ~--~~~~g~~~~a~~~~~~  436 (470)
                      .  ....|+.+++.....+
T Consensus       666 ~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         666 LILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HHHhcccCCHHHHHHHHHh
Confidence            2  3467888777766555

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=81.04  E-value=28  Score=30.67  Aligned_cols=87  Identities=8%  Similarity=0.017  Sum_probs=47.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----
Q 012126          208 MRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR----  283 (470)
Q Consensus       208 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----  283 (470)
                      |.++++.+++.++....-+--+.--+....+...-|-.|.+.+.+..+.++-..-....-.-+...|..+++.|..    
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLl  169 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLL  169 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHh
Confidence            5566666666666655444332221223344455555666777776666666555543222233346666655544    


Q ss_pred             -cCCHHHHHHHH
Q 012126          284 -KKKLREAYKLL  294 (470)
Q Consensus       284 -~~~~~~a~~~~  294 (470)
                       .|.+++|+++.
T Consensus       170 PLG~~~eAeelv  181 (309)
T PF07163_consen  170 PLGHFSEAEELV  181 (309)
T ss_pred             ccccHHHHHHHH
Confidence             56777776665

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

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=80.27  E-value=33  Score=28.62  Aligned_cols=89  Identities=12%  Similarity=0.065  Sum_probs=51.5

Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC
Q 012126          211 FCFNGDISIAYTLFNKMFERGVMPD----VESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKK  286 (470)
Q Consensus       211 ~~~~g~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  286 (470)
                      +.+.|++++|..-|...++......    ...|..-..++.+.+.++.|++--.+.++.+.. ...+...-..+|.+...
T Consensus       105 ~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKMEK  183 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhhhh
Confidence            4466777777777777666532222    223333445666677777777666666655432 22222233445666677


Q ss_pred             HHHHHHHHHHHHHc
Q 012126          287 LREAYKLLCRMKVK  300 (470)
Q Consensus       287 ~~~a~~~~~~m~~~  300 (470)
                      ++.|++-|..+.+.
T Consensus       184 ~eealeDyKki~E~  197 (271)
T KOG4234|consen  184 YEEALEDYKKILES  197 (271)
T ss_pred             HHHHHHHHHHHHHh
Confidence            77777777777665

>PRK09687 putative lyase; Provisional

Probab=80.16  E-value=44  Score=29.94  Aligned_cols=134  Identities=16%  Similarity=0.053  Sum_probs=59.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHhHHHHHHHhchhCCCCCCHHHHHHHH
Q 012126          270 DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREG-RAIDACKVLEDMPSNGCLPNLVSYRTLV  348 (470)
Q Consensus       270 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li  348 (470)
                      +..+-...+.++.+.++ +.+...+-.+.+.   ++...-...+.++.+.+ ....+...+..+..   .++..+-...+
T Consensus       141 ~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~  213 (280)
T PRK09687        141 STNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAI  213 (280)
T ss_pred             CHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHH
Confidence            44444455555555554 3344444444432   23333333444444432 12344444444443   23445555555


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          349 GGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVP  419 (470)
Q Consensus       349 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  419 (470)
                      .++.+.|+. .+...+-...+.+   +  .....+.++...|.. +|...+..+.+..  +|..+-...+.
T Consensus       214 ~aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~~--~d~~v~~~a~~  275 (280)
T PRK09687        214 IGLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK-TLLPVLDTLLYKF--DDNEIITKAID  275 (280)
T ss_pred             HHHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-hHHHHHHHHHhhC--CChhHHHHHHH
Confidence            556555553 3444333333332   1  123455555555553 4555555555422  34444443333

>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=80.12  E-value=5.6  Score=21.74  Aligned_cols=27  Identities=26%  Similarity=0.256  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          378 VSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      +|..+...|...|++++|.+.|++.++
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            566677778888888888888887765

...

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	470
4g24_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		1e-04

>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/117 (26%), Positives = 51/117 (43%)
Query: 182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRI 241
           L   FD+FK      V+PN  ++    R      D  +A+ +  +M   G+ P + SY  
Sbjct: 86  LSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGP 145
Query: 242 LMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMK 298
            + G CRK   ++A ++   M+    VP+      LL      K   + YK L R++
Sbjct: 146 ALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLR 202

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	470
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-19
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	5e-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 = 90.3 bits (222), Expect = 3e-19
 Identities = 27/178 (15%), Positives = 58/178 (32%), Gaps = 4/178 (2%)

Query: 194 KHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNK---MFERGVMPDVESYRILMQGLCRKS 250
           +  +    +      +       + +A+ L        ++  +  ++ Y  +M G  R+ 
Sbjct: 120 QAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQG 179

Query: 251 QVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAY-KLLCRMKVKGCNPDIVHY 309
                V +L  + + G  PD LSY   L  + R+ +      + L +M  +G     +  
Sbjct: 180 AFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFT 239

Query: 310 NTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLM 367
             ++    R        KV         LP  V+   L+  +  +       K    +
Sbjct: 240 AVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPL 297

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 81.8 bits (200), Expect = 1e-16
 Identities = 35/215 (16%), Positives = 70/215 (32%), Gaps = 5/215 (2%)

Query: 130 PSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLF 189
                 L++        D          +       ++L    +  +   + L  A  L 
Sbjct: 92  EEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCL-LTDQLPLAHHLL 150

Query: 190 KSAH---KHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGL 246
              H   +   L     YN +M  +   G       +   + + G+ PD+ SY   +Q +
Sbjct: 151 VVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCM 210

Query: 247 CRKSQVNRAV-DLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPD 305
            R+ Q    +   LE M  +G     L    LL+   R   L+  +K+     +    P 
Sbjct: 211 GRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPP 270

Query: 306 IVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN 340
            V+ + ++     +   +   K+   + +  CL  
Sbjct: 271 PVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFE 305

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 75.2 bits (183), Expect = 2e-14
 Identities = 30/180 (16%), Positives = 54/180 (30%), Gaps = 4/180 (2%)

Query: 234 PDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKL 293
           P  E    L+Q    K  ++                                +L  A+ L
Sbjct: 90  PWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHL 149

Query: 294 LCRMK---VKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGG 350
           L        K     +  YN V+LG+ R+G   +   VL  +   G  P+L+SY   +  
Sbjct: 150 LVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC 209

Query: 351 LCDQGMFD-VAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAP 409
           +  Q       ++ ++ M  +G       +  L+        +     V        + P
Sbjct: 210 MGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLP 269

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 61.0 bits (146), Expect = 5e-10
 Identities = 29/277 (10%), Positives = 71/277 (25%), Gaps = 10/277 (3%)

Query: 37  SQESPSSPEQQQESSISNSKSPIGSPCRVQKLIASQSDPLLAKEIFDY--ASRQPNFRHS 94
            ++  +   + Q               +           LL+K++        +      
Sbjct: 31  EKDKRTQQMRMQRLKAKLQMPFQSGEFKALTRRLQVEPRLLSKQMAGCLEDCTRQAPESP 90

Query: 95  NSTYLILILKLGRAKYFSLIDDILITLKSEH--YPVTPSLFTYLIKIYAESNLPDRA--- 149
               L  +L+    K    ++       S+         L  +  K    ++    A   
Sbjct: 91  WEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFF-KCCLLTDQLPLAHHL 149

Query: 150 LKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMR 209
           L       +          N ++        +      +       G+ P+  SY   ++
Sbjct: 150 LVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKE-LVYVLFMVKDAGLTPDLLSYAAALQ 208

Query: 210 AFCFNGDISIAY-TLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV 268
                   +        +M + G+        +L+    R + +     +         +
Sbjct: 209 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQL 268

Query: 269 PDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPD 305
           P  ++ + LL  +  K       KL   +K   C  +
Sbjct: 269 PPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFE 305

>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 = 66.4 bits (161), Expect = 1e-11
 Identities = 74/491 (15%), Positives = 135/491 (27%), Gaps = 143/491 (29%)

Query: 7   LRSSKIV----------TTVTGAV----TFPPKTPSLIFCYSSSSQESPSSPEQQQESSI 52
           LR +K V          T V   V        K    IF  +  +  SP +  +  +  +
Sbjct: 147 LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL 206

Query: 53  SNSKSPIGSPCRVQKLIASQSDPLLAKEIFDYASR---QPNFRHSNSTYLIL-------I 102
                   S         S +  L    I     R      + +     L+L        
Sbjct: 207 YQIDPNWTSRSD-----HSSNIKLRIHSIQAELRRLLKSKPYENC---LLVLLNVQNAKA 258

Query: 103 LKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNL-----PDRALKTFRSML 157
                   F+L   IL+T  +    VT  L        +  +      PD         L
Sbjct: 259 WN-----AFNLSCKILLT--TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL 311

Query: 158 EFNCKPLPKQLNRILELLV------------THRNYLRPAFDLFKSAHKHGVLPNTKSYN 205
           +   + LP+++       +            T  N+     D   +  +        S N
Sbjct: 312 DCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE-------SSLN 364

Query: 206 IM----MRA-----FCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAV 256
           ++     R        F     I   L + ++   +  DV    +++  L + S      
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM---VVVNKLHKYS------ 415

Query: 257 DLLEDMLNKGFVPDTLSYTTLLNSLCRK--------KKLREAYKLLCRMKVKGCNPD--- 305
                ++ K     T+S  ++   L  K        + + + Y +          P    
Sbjct: 416 -----LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470

Query: 306 ------IVH-------------YNTVVLGF-------CREGRAIDACKVLEDMPSNGCLP 339
                 I H             +  V L F         +  A +A   + +      L 
Sbjct: 471 QYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNT-----LQ 525

Query: 340 NLVSYRTLVGGLCDQGMFDVAKKYMQLMIS-KGFSPHFSVSHALIKG-FCNVGKV---DE 394
            L  Y+          + D   KY +L+ +   F P   +   LI   + ++ ++    E
Sbjct: 526 QLKFYK--------PYICDNDPKYERLVNAILDFLP--KIEENLICSKYTDLLRIALMAE 575

Query: 395 ACGVLEELLKA 405
              + EE  K 
Sbjct: 576 DEAIFEEAHKQ 586

>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 = 43.3 bits (101), Expect = 2e-04
 Identities = 45/336 (13%), Positives = 96/336 (28%), Gaps = 93/336 (27%)

Query: 178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAF--CFNGDISIAYTLFNKMFERGVMPD 235
           H +++    D     H++        Y  ++  F   F  +             + ++  
Sbjct: 3   HHHHM----DFETGEHQY-------QYKDILSVFEDAFVDNFDCKDVQ---DMPKSILSK 48

Query: 236 VESYRILMQG------------LCRK--SQVNRAVDLLEDMLNK--GFV----------- 268
            E   I+M              L  K    V + V   E++L     F+           
Sbjct: 49  EEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFV---EEVLRINYKFLMSPIKTEQRQP 105

Query: 269 -PDTLSYTTLLNSLC------------RKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLG 315
              T  Y    + L             R +   +  + L  ++      +++     VLG
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRP---AKNVLIDG--VLG 160

Query: 316 FCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH 375
               G+   A  V         +   + +  L    C+     +    +Q ++ +   P+
Sbjct: 161 S---GKTWVALDVCLSYKVQCKMDFKIFWLNL--KNCNSPETVLEM--LQKLLYQ-IDPN 212

Query: 376 FSVSHALIKGFCNVG-KVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVL 434
           +    +      N+  ++      L  LLK    P+E+   ++V           L  V 
Sbjct: 213 W---TSRSDHSSNIKLRIHSIQAELRRLLK--SKPYENC--LLV-----------LLNVQ 254

Query: 435 N-EIVKV-EIKGDTRIVEAGIGLEDYLIGKTRSRPR 468
           N +      +     +      + D+L   T +   
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 47.0 bits (111), Expect = 5e-06
 Identities = 32/213 (15%), Positives = 65/213 (30%), Gaps = 15/213 (7%)

Query: 32  CYSSSSQESPSSPEQQQESSISNSKSPI--GSPCRVQKLIASQSDPLLA--KEIFDYASR 87
           C + + +  PSSPE+  E  +   ++ +       V   I   S P L   +   +Y + 
Sbjct: 18  CINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLAS 77

Query: 88  QPNFRHSNSTYLILI----------LKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLI 137
                   +     +            L  A  +    +    L++ H   +       +
Sbjct: 78  HSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQGDSLECMAMTV 137

Query: 138 KIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGV 197
           +I  + +  D A K  + M + +      QL      L      L+ A+ +F+       
Sbjct: 138 QILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC- 196

Query: 198 LPNTKSYNIMMRAFCFNGDISIAYTLFNKMFER 230
            P     N         G    A  +  +  ++
Sbjct: 197 SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK 229

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	470
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
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.91
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.89
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.85
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.85
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.81
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.8
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.8
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.79
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.79
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.78
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.78
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.78
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.78
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.78
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.77
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.75
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.75
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.74
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.74
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.71
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.71
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.7
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.69
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.67
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.66
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.66
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.65
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.63
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.63
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.63
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.63
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.63
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.62
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.61
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.61
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.6
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.6
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.6
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.6
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.59
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.57
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.57
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.52
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.51
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.51
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.51
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.51
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.5
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.49
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.47
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.47
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.46
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.45
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.45
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.45
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.44
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.44
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.43
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.42
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.37
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.36
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.36
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.35
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.33
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.33
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.32
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.31
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.27
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.25
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.24
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.23
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.21
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.18
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.11
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.1
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.1
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.09
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.07
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.06
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.04
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.03
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.03
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.02
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.01
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.01
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.99
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.99
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.98
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.97
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.95
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.94
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.93
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.9
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.89
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.88
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.88
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.88
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.86
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.83
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.82
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.82
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.81
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.81
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.77
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.75
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.75
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.73
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.7
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.7
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.67
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.63
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.63
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.63
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.62
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.59
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.59
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.57
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.57
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.56
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.55
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.54
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.54
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.54
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.53
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.53
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.53
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.53
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.51
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.51
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.49
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.48
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.48
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.48
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.45
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.44
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.44
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.42
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.41
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.4
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.39
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.38
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.37
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.35
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.35
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.35
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.34
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.33
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.33
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.32
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.32
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.29
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.29
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.29
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.27
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.26
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.26
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.23
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.22
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.21
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.2
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.19
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.18
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.16
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.15
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.14
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.08
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.06
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.04
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.02
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.0
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.98
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.95
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.94
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.93
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.9
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.87
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.87
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.83
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.8
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.79
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.78
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.75
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.71
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.7
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.69
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.66
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.6
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.58
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.51
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.48
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.42
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.37
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.31
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.26
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.1
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.84
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.84
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.8
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.73
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.71
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.65
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.56
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.53
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.53
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.47
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.36
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.36
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.32
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.31
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.24
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.19
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.97
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.92
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.88
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.68
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.5
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.3
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.2
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.92
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.91
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	93.34
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	93.16
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.08
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.54
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.4
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.28
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	90.85
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	90.5
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.32
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	89.77
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	89.47
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	88.87
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	88.83
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	88.8
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	87.64
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	86.99
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	85.96
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	85.61
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	84.75
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	84.63
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	84.51
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	83.07
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	82.96
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	82.64
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	81.43
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	81.02
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	80.61
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	80.43

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=6.7e-32  Score=269.44  Aligned_cols=367  Identities=10%  Similarity=-0.012  Sum_probs=275.0

Q ss_pred             HHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHc
Q 012126           64 RVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAES  143 (470)
Q Consensus        64 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  143 (470)
                      .+...+...|+++.|+.+|+.+...   .|+..++..++..|.+.|++++|..+++.+...  ++++.+++.++.+|.+.
T Consensus        89 ~~~~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~  163 (597)
T 2xpi_A           89 LWRHDALMQQQYKCAAFVGEKVLDI---TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFCLVKL  163 (597)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHccCchHHHHHHHHHHhh---CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHHHHHH
Confidence            4456667889999999999988743   357788888888899999999999988887543  56778888888888888


Q ss_pred             CCchhHHHHHHHHHhC---------------CCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCC-----------
Q 012126          144 NLPDRALKTFRSMLEF---------------NCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGV-----------  197 (470)
Q Consensus       144 g~~~~A~~~~~~~~~~---------------~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~-----------  197 (470)
                      |++++|+++|+++...               +..++..+++.+...+. ..|++++|.++|+++.+.+.           
T Consensus       164 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  242 (597)
T 2xpi_A          164 YDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYT-NLSNFDRAKECYKEALMVDAKCYEAFDQLVS  242 (597)
T ss_dssp             TCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHhCchhhHHHHHHHH
Confidence            8888888888743221               12234566666666665 44557888888777765432           


Q ss_pred             -----------------------------------------------------------CCCHHHHHHHHHHHHhcCChh
Q 012126          198 -----------------------------------------------------------LPNTKSYNIMMRAFCFNGDIS  218 (470)
Q Consensus       198 -----------------------------------------------------------~~~~~~~~~li~~~~~~g~~~  218 (470)
                                                                                 .++..+|+.++.+|.+.|+++
T Consensus       243 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  322 (597)
T 2xpi_A          243 NHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFI  322 (597)
T ss_dssp             TTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHH
T ss_pred             hhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHH
Confidence                                                                       156777788888888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012126          219 IAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMK  298 (470)
Q Consensus       219 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  298 (470)
                      +|.++|+++.+.+.. +..++..++.++.+.|++++|.++++++.+... .+..+++.++.+|.+.|++++|.++|+++.
T Consensus       323 ~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  400 (597)
T 2xpi_A          323 DVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRHP-EKAVTWLAVGIYYLCVNKISEARRYFSKSS  400 (597)
T ss_dssp             HHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            888888888776543 666777777777777777777777777765433 367778888888888888888888888887


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 012126          299 VKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSV  378 (470)
Q Consensus       299 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  378 (470)
                      +.. +.+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..+|..++.+|.+.|++++|.++|+++.+.. +.+..+
T Consensus       401 ~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~  477 (597)
T 2xpi_A          401 TMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLL  477 (597)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHH
Confidence            652 3356788888888888888888888888877653 3467778888888888888888888888887753 346777


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHcCCcHHHHHHHHHHHHHcc
Q 012126          379 SHALIKGFCNVGKVDEACGVLEELLKA----GEAPH--EDTWVMIVPQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       379 ~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      |+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.++++++.+.+
T Consensus       478 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  546 (597)
T 2xpi_A          478 LNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS  546 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            888888888888888888888887665    55666  6788888888888888888888888887654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3.4e-31  Score=264.34  Aligned_cols=372  Identities=10%  Similarity=0.016  Sum_probs=320.9

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhC---------------CCC
Q 012126           63 CRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSE---------------HYP  127 (470)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---------------~~~  127 (470)
                      ..+...+...|+++.|+.+|+.+...   +++..++..++..+.+.|++++|.++|+++...               +.+
T Consensus       121 ~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  197 (597)
T 2xpi_A          121 FWLAQVYCCTGDYARAKCLLTKEDLY---NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIK  197 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHTCGG---GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCC
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHhcc---ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccc
Confidence            44567778899999999999988643   468899999999999999999999999853222               223


Q ss_pred             CCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCC----------------------------------------------
Q 012126          128 VTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNC----------------------------------------------  161 (470)
Q Consensus       128 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----------------------------------------------  161 (470)
                      .+..+|+.++.+|.+.|++++|+++|+++.+.+.                                              
T Consensus       198 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  277 (597)
T 2xpi_A          198 LEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYML  277 (597)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHH
Confidence            4578999999999999999999999999876431                                              


Q ss_pred             ------------------------ccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh
Q 012126          162 ------------------------KPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDI  217 (470)
Q Consensus       162 ------------------------~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  217 (470)
                                              .++..+++.+...+. ..|++++|..+|+++.+.+.. +..+++.++.+|.+.|++
T Consensus       278 ~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~  355 (597)
T 2xpi_A          278 KLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLF-VRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEK  355 (597)
T ss_dssp             TSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCH
T ss_pred             HHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHH-HhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCH
Confidence                                    145555666666555 556799999999999987643 788899999999999999


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 012126          218 SIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRM  297 (470)
Q Consensus       218 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m  297 (470)
                      ++|.++++++.+.. +.+..+++.++.+|.+.|++++|.++|+++.+.... +..+|+.++.+|.+.|++++|.++|+++
T Consensus       356 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  433 (597)
T 2xpi_A          356 NKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTA  433 (597)
T ss_dssp             HHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999998764 347899999999999999999999999999886543 7889999999999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCC
Q 012126          298 KVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK----GFS  373 (470)
Q Consensus       298 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~  373 (470)
                      .+.+ +.+..+|+.++.+|.+.|++++|.++|+++.+.. +.+..+|+.++..|.+.|++++|.++|+++.+.    +..
T Consensus       434 ~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  511 (597)
T 2xpi_A          434 ARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSN  511 (597)
T ss_dssp             HHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCC
T ss_pred             HHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccc
Confidence            8874 4478899999999999999999999999998864 347899999999999999999999999999876    667


Q ss_pred             CC--HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCc
Q 012126          374 PH--FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDT  446 (470)
Q Consensus       374 ~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  446 (470)
                      |+  ..+|..++.+|.+.|++++|.++|+++.+.+ +.+..+|..+..+|.+.|++++|.+.++++++.  .|+.
T Consensus       512 p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~p~~  583 (597)
T 2xpi_A          512 EKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAI--SPNE  583 (597)
T ss_dssp             SGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             hhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCC
Confidence            77  7899999999999999999999999998865 348899999999999999999999999999964  4554

>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=1.4e-32  Score=264.20  Aligned_cols=207  Identities=20%  Similarity=0.265  Sum_probs=173.8

Q ss_pred             hhHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC---------h
Q 012126          183 RPAFDLFKSAHKHGVLPNT-KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQ---------V  252 (470)
Q Consensus       183 ~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---------~  252 (470)
                      ..+..+.+++.+.+....+ ..++.+|++|++.|++++|.++|++|.+.|+.||..||++||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            4456666677766655443 45788899999999999999999999999999999999999999987654         6


Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhc
Q 012126          253 NRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDM  332 (470)
Q Consensus       253 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  332 (470)
                      ++|.++|++|...|+.||..+|++||.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 012126          333 PSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNV  389 (470)
Q Consensus       333 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  389 (470)
                      .+.|+.||..||++||.+|++.|++++|.+++++|.+.|..|+..||+.++..|...
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999999999999888754

>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=2.1e-32  Score=262.89  Aligned_cols=207  Identities=18%  Similarity=0.195  Sum_probs=182.8

Q ss_pred             hHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC---------H
Q 012126          218 SIAYTLFNKMFERGVMPDV-ESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKK---------L  287 (470)
Q Consensus       218 ~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---------~  287 (470)
                      ..+..+.+++.+++..... ..++.+|.+|++.|++++|+++|++|.+.|+.||..+|++||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            3456667777777765544 46888999999999999999999999999999999999999999987654         7


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 012126          288 REAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLM  367 (470)
Q Consensus       288 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  367 (470)
                      +.|.++|++|...|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 012126          368 ISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAG  424 (470)
Q Consensus       368 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  424 (470)
                      .+.|+.||..+|++||.+|++.|++++|.++|++|.+.|..|+..||+.++..|+..
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999999999999998763

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=3.2e-27  Score=222.65  Aligned_cols=367  Identities=13%  Similarity=0.046  Sum_probs=316.3

Q ss_pred             HHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC
Q 012126           65 VQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESN  144 (470)
Q Consensus        65 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  144 (470)
                      +...+...|+++.|++.++.+.+..  +.+...+..+...+.+.|++++|...++...+.. |.+..+|..+...|.+.|
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g   81 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQE--PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERG   81 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCC
Confidence            4566778999999999999887654  4567778888888999999999999999988775 778999999999999999


Q ss_pred             CchhHHHHHHHHHhCCCccCHH-HHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 012126          145 LPDRALKTFRSMLEFNCKPLPK-QLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTL  223 (470)
Q Consensus       145 ~~~~A~~~~~~~~~~~~~p~~~-~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  223 (470)
                      ++++|++.|+++...  .|+.. .+..+...+. ..|++++|.+.|+++.+..+. +...+..+...+...|++++|.+.
T Consensus        82 ~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~-~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~  157 (388)
T 1w3b_A           82 QLQEAIEHYRHALRL--KPDFIDGYINLAAALV-AAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKAC  157 (388)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH-HHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHc--CcchHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHH
Confidence            999999999999874  46544 4555554444 667799999999999987643 566788888999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 012126          224 FNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCN  303 (470)
Q Consensus       224 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~  303 (470)
                      |+++.+.... +..+|..+...+...|++++|+..|+++.+.++. +...+..+...+...|++++|...+++..+.. +
T Consensus       158 ~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p  234 (388)
T 1w3b_A          158 YLKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-P  234 (388)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-T
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-c
Confidence            9999987543 6889999999999999999999999999987654 67789999999999999999999999998763 3


Q ss_pred             CCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012126          304 PDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALI  383 (470)
Q Consensus       304 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  383 (470)
                      .+..++..+...|.+.|++++|...|+++.+.+ +.+..+|..+..++.+.|++++|...++++.+.. +.+..+++.+.
T Consensus       235 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  312 (388)
T 1w3b_A          235 NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLA  312 (388)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHH
Confidence            357889999999999999999999999998863 2357789999999999999999999999999863 56788999999


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCc
Q 012126          384 KGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDT  446 (470)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  446 (470)
                      ..+...|++++|.+.++++++.. +.+..++..+..+|.+.|++++|.+.++++++  ..|+.
T Consensus       313 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p~~  372 (388)
T 1w3b_A          313 NIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTF  372 (388)
T ss_dssp             HHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCC
Confidence            99999999999999999998853 34678999999999999999999999999995  45654

>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=99.96  E-value=3.9e-26  Score=215.20  Aligned_cols=351  Identities=13%  Similarity=0.016  Sum_probs=307.0

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 012126           63 CRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAE  142 (470)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  142 (470)
                      ..+..++...++++.|..+++.+....  +.+...|..+...+.+.|++++|...++++.... |.+...+..+..++..
T Consensus        37 ~~l~~~~~~~~~~~~a~~~~~~a~~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  113 (388)
T 1w3b_A           37 LLLSSIHFQCRRLDRSAHFSTLAIKQN--PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVA  113 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHH
Confidence            455677888999999999999887654  5688999999999999999999999999998875 6678889999999999


Q ss_pred             cCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 012126          143 SNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYT  222 (470)
Q Consensus       143 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  222 (470)
                      .|++++|++.|+++.+.  .|+.......+..++...|++++|.+.|+++.+.... +..+|+.+...+...|++++|..
T Consensus       114 ~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~  190 (388)
T 1w3b_A          114 AGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIH  190 (388)
T ss_dssp             HSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999884  5777777777777887889999999999999987543 68899999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 012126          223 LFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGC  302 (470)
Q Consensus       223 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  302 (470)
                      .|+++.+.+.. +...|..+...+...|++++|+..+++....... +..++..+..+|.+.|++++|...|+++.+.+ 
T Consensus       191 ~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-  267 (388)
T 1w3b_A          191 HFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-  267 (388)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-
T ss_pred             HHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-
Confidence            99999987644 6788999999999999999999999999887544 67889999999999999999999999999873 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 012126          303 NPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHAL  382 (470)
Q Consensus       303 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  382 (470)
                      +.+..+|..+...+.+.|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+
T Consensus       268 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  345 (388)
T 1w3b_A          268 PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNL  345 (388)
T ss_dssp             SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHH
Confidence            3357789999999999999999999999998863 4578899999999999999999999999998863 4567899999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 012126          383 IKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGE  425 (470)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  425 (470)
                      ...|.+.|++++|.+.|+++++... .+...|..+...+...|
T Consensus       346 ~~~~~~~g~~~~A~~~~~~a~~~~p-~~~~a~~~lg~~~~~~~  387 (388)
T 1w3b_A          346 ASVLQQQGKLQEALMHYKEAIRISP-TFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             HHHHHTTTCCHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHhHHHHHHHcc
Confidence            9999999999999999999988542 25667777777766655

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.94  E-value=4e-23  Score=198.48  Aligned_cols=297  Identities=10%  Similarity=0.050  Sum_probs=181.1

Q ss_pred             hHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 012126           62 PCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYA  141 (470)
Q Consensus        62 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  141 (470)
                      ...++..+...|+++.|+.+|+.+....  +.+...+..+...+...|++++|...++.+.+.+ |.+..++..+..+|.
T Consensus        29 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  105 (450)
T 2y4t_A           29 HLELGKKLLAAGQLADALSQFHAAVDGD--PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLL  105 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHH
Confidence            3455566777888888888888876543  3567788888888888888888888888887765 556778888888888


Q ss_pred             HcCCchhHHHHHHHHHhCCCccCHH----HHHHHHH-----------HHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHH
Q 012126          142 ESNLPDRALKTFRSMLEFNCKPLPK----QLNRILE-----------LLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNI  206 (470)
Q Consensus       142 ~~g~~~~A~~~~~~~~~~~~~p~~~----~~~~ll~-----------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  206 (470)
                      ..|++++|++.|+++.+.  .|+..    .+..+..           ..+...|++++|...|+++.+... .+...+..
T Consensus       106 ~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~  182 (450)
T 2y4t_A          106 KQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV-WDAELREL  182 (450)
T ss_dssp             HTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHH
Confidence            888888888888888773  35443    2222211           112244456666666666665432 25556666


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHH---------
Q 012126          207 MMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTL---------  277 (470)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---------  277 (470)
                      +..+|...|++++|.++|+++.+... .+..++..+..+|...|++++|+..|+++.+.... +...+..+         
T Consensus       183 l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~~~~~~~~~  260 (450)
T 2y4t_A          183 RAECFIKEGEPRKAISDLKAASKLKN-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNKL  260 (450)
T ss_dssp             HHHHHHHTTCGGGGHHHHHHHHHHHC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHHHHHHHHHH
Confidence            66666666666666666666655432 24556666666666666666666666666544322 23333332         


Q ss_pred             ---HHHHHhcCCHHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHH
Q 012126          278 ---LNSLCRKKKLREAYKLLCRMKVKGCNPD-----IVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVG  349 (470)
Q Consensus       278 ---l~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  349 (470)
                         ...+.+.|++++|...|+++.+.  .|+     ...|..+...+.+.|++++|+..++++.+.. +.+...|..+..
T Consensus       261 ~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~  337 (450)
T 2y4t_A          261 IESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAE  337 (450)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence               45555556666666666655553  222     2345555555556666666666665555431 224455555555


Q ss_pred             HHHhcCChHHHHHHHHHHHH
Q 012126          350 GLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       350 ~~~~~g~~~~a~~~~~~~~~  369 (470)
                      +|...|++++|...++++.+
T Consensus       338 ~~~~~~~~~~A~~~~~~al~  357 (450)
T 2y4t_A          338 AYLIEEMYDEAIQDYETAQE  357 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHhcCHHHHHHHHHHHHH
Confidence            56666666666666665555

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.93  E-value=9.8e-23  Score=195.79  Aligned_cols=343  Identities=12%  Similarity=0.040  Sum_probs=276.6

Q ss_pred             CCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHH
Q 012126           92 RHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRI  171 (470)
Q Consensus        92 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l  171 (470)
                      +.+...+..+...+.+.|++++|..+|+.+.... |.+..++..+..+|...|++++|+..|+++.+.+  |+.......
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~   99 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK--MDFTAARLQ   99 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCcHHHHHH
Confidence            4567789999999999999999999999998764 6689999999999999999999999999998853  544444444


Q ss_pred             HHHHHhcCCChhhHHHHHHHHHHCCCCCCH---HHHHHH------------HHHHHhcCChhHHHHHHHHHHHCCCCCCH
Q 012126          172 LELLVTHRNYLRPAFDLFKSAHKHGVLPNT---KSYNIM------------MRAFCFNGDISIAYTLFNKMFERGVMPDV  236 (470)
Q Consensus       172 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~~~~p~~  236 (470)
                      +..++...|++++|...|+++.+.... +.   ..+..+            ...+...|++++|..+|+++.+.... +.
T Consensus       100 l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~  177 (450)
T 2y4t_A          100 RGHLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVW-DA  177 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-Ch
Confidence            455555777899999999999986532 33   555555            44488999999999999999987543 78


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH----
Q 012126          237 ESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTV----  312 (470)
Q Consensus       237 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l----  312 (470)
                      .++..+..+|...|++++|++.|+++.+.... +..++..+..+|...|++++|...|+++.+.. +.+...+..+    
T Consensus       178 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~  255 (450)
T 2y4t_A          178 ELRELRAECFIKEGEPRKAISDLKAASKLKND-NTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVK  255 (450)
T ss_dssp             HHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHH
Confidence            89999999999999999999999999876543 78899999999999999999999999998763 2234445444    


Q ss_pred             --------HHHHHhcCCHhHHHHHHHhchhCCCCCC-----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH
Q 012126          313 --------VLGFCREGRAIDACKVLEDMPSNGCLPN-----LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVS  379 (470)
Q Consensus       313 --------i~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  379 (470)
                              ...+.+.|++++|...|+++.+.  .|+     ...|..+...+.+.|++++|...++++.+.. +.+..+|
T Consensus       256 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~  332 (450)
T 2y4t_A          256 KLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNAL  332 (450)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHH
Confidence                    78899999999999999999884  354     4478888999999999999999999998863 4468899


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH------------HHcCC-----cHHHHHHHHHHHHHccc
Q 012126          380 HALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQ------------ICAGE-----EMEKLGEVLNEIVKVEI  442 (470)
Q Consensus       380 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~------------~~~~g-----~~~~a~~~~~~m~~~~~  442 (470)
                      ..+..+|...|++++|...|+++++... -+...+..+..+            |...|     +.+++.+.++++.. ..
T Consensus       333 ~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l-~~  410 (450)
T 2y4t_A          333 KDRAEAYLIEEMYDEAIQDYETAQEHNE-NDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLAL-QW  410 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTSS-SCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHH-HS
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCc-chHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHH-Hh
Confidence            9999999999999999999999988542 245666666632            33344     56777888886322 23


Q ss_pred             cCCc
Q 012126          443 KGDT  446 (470)
Q Consensus       443 ~p~~  446 (470)
                      .||.
T Consensus       411 ~pd~  414 (450)
T 2y4t_A          411 HPDN  414 (450)
T ss_dssp             CGGG
T ss_pred             CCCC
Confidence            4554

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.93  E-value=9.3e-23  Score=199.33  Aligned_cols=373  Identities=12%  Similarity=-0.027  Sum_probs=309.0

Q ss_pred             HHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHc
Q 012126           64 RVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAES  143 (470)
Q Consensus        64 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  143 (470)
                      ..+..+...|+++.|+..|+.+....   |+...|..+...+.+.|++++|...++.+.+.+ |.+..++..+..+|...
T Consensus        11 ~~g~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~   86 (514)
T 2gw1_A           11 DKGNQFFRNKKYDDAIKYYNWALELK---EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGL   86 (514)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHHHC---CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhcC---ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHH
Confidence            45677888999999999999998764   588999999999999999999999999998876 67888999999999999


Q ss_pred             CCchhHHHHHHHHHhCCCc-------------------------------------------------------------
Q 012126          144 NLPDRALKTFRSMLEFNCK-------------------------------------------------------------  162 (470)
Q Consensus       144 g~~~~A~~~~~~~~~~~~~-------------------------------------------------------------  162 (470)
                      |++++|+..|+++...+..                                                             
T Consensus        87 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (514)
T 2gw1_A           87 GKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMAS  166 (514)
T ss_dssp             TCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHH
Confidence            9999999999998765420                                                             


Q ss_pred             ----------------cCHHHHHHHHHHHHh---cCCChhhHHHHHHHHHH-----CCCC--------CCHHHHHHHHHH
Q 012126          163 ----------------PLPKQLNRILELLVT---HRNYLRPAFDLFKSAHK-----HGVL--------PNTKSYNIMMRA  210 (470)
Q Consensus       163 ----------------p~~~~~~~ll~~~~~---~~~~~~~a~~~~~~~~~-----~~~~--------~~~~~~~~li~~  210 (470)
                                      |+.............   ..|++++|...|+++.+     ....        .+...+..+...
T Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (514)
T 2gw1_A          167 FFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIF  246 (514)
T ss_dssp             HHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHH
Confidence                            111111111222122   26789999999999988     4111        235678888999


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 012126          211 FCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREA  290 (470)
Q Consensus       211 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  290 (470)
                      +...|++++|..+|+++.+.+..  ..++..+..++...|++++|+..++++.+.... +..++..+..++...|++++|
T Consensus       247 ~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A  323 (514)
T 2gw1_A          247 KFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFILQNYDQA  323 (514)
T ss_dssp             HHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTT-CTHHHHHHHHHHHHTTCTTHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcC-CHHHHHHHHHHHHHhCCHHHH
Confidence            99999999999999999987654  888999999999999999999999999987544 677889999999999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 012126          291 YKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK  370 (470)
Q Consensus       291 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  370 (470)
                      ...+++..+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.
T Consensus       324 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  401 (514)
T 2gw1_A          324 GKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIEL  401 (514)
T ss_dssp             HHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999998874 3357788899999999999999999999988753 335678888999999999999999999998874


Q ss_pred             CC-CCC----HHHHHHHHHHHHc---cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccc
Q 012126          371 GF-SPH----FSVSHALIKGFCN---VGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEI  442 (470)
Q Consensus       371 ~~-~~~----~~~~~~li~~~~~---~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  442 (470)
                      .. .++    ...+..+...+..   .|++++|...++++++.. +.+..++..+..+|.+.|++++|.+.++++++.. 
T Consensus       402 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-  479 (514)
T 2gw1_A          402 ENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADLA-  479 (514)
T ss_dssp             HHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             hhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhc-
Confidence            21 111    3488899999999   999999999999998864 3367889999999999999999999999999654 


Q ss_pred             cCCcee
Q 012126          443 KGDTRI  448 (470)
Q Consensus       443 ~p~~~~  448 (470)
                       |+...
T Consensus       480 -~~~~~  484 (514)
T 2gw1_A          480 -RTMEE  484 (514)
T ss_dssp             -SSHHH
T ss_pred             -cccHH
Confidence             55433

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.91  E-value=3.2e-21  Score=189.58  Aligned_cols=369  Identities=10%  Similarity=0.037  Sum_probs=294.8

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 012126           63 CRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAE  142 (470)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  142 (470)
                      ..++..+...|+++.|+..|+.+....  +.+...+..+...+.+.|++++|.+.++.+.+.+ |.+..++..+..++..
T Consensus        29 ~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~  105 (537)
T 3fp2_A           29 KNRGNHFFTAKNFNEAIKYYQYAIELD--PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANES  105 (537)
T ss_dssp             HHHHHHHHHTTCCC-CHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHH
Confidence            445677888999999999999998765  4678999999999999999999999999998876 6788999999999999


Q ss_pred             cCCchhHHHHHHHHHhCCC------------------------------------ccCHHH-------------------
Q 012126          143 SNLPDRALKTFRSMLEFNC------------------------------------KPLPKQ-------------------  167 (470)
Q Consensus       143 ~g~~~~A~~~~~~~~~~~~------------------------------------~p~~~~-------------------  167 (470)
                      .|++++|+..|+.+.....                                    .|+...                   
T Consensus       106 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  185 (537)
T 3fp2_A          106 LGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNT  185 (537)
T ss_dssp             HTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCC
T ss_pred             cCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhh
Confidence            9999999999964321100                                    011111                   


Q ss_pred             ----------HHHHHHHHHhc--------CCChhhHHHHHHHHHHCCCCCC-------HHHHHHHHHHHHhcCChhHHHH
Q 012126          168 ----------LNRILELLVTH--------RNYLRPAFDLFKSAHKHGVLPN-------TKSYNIMMRAFCFNGDISIAYT  222 (470)
Q Consensus       168 ----------~~~ll~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~-------~~~~~~li~~~~~~g~~~~a~~  222 (470)
                                +...+..+...        .+++++|..+++++.+.... +       ..++..+...+...|++++|..
T Consensus       186 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~  264 (537)
T 3fp2_A          186 SSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFHFLKNNLLDAQV  264 (537)
T ss_dssp             CCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHHhcccHHHHHH
Confidence                      11122222111        13578899999999876533 3       2356777788899999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 012126          223 LFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGC  302 (470)
Q Consensus       223 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  302 (470)
                      .|++..+..  |+..++..+...+...|++++|++.++++.+.... +..++..+..++...|++++|...+++..+.. 
T Consensus       265 ~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-  340 (537)
T 3fp2_A          265 LLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-  340 (537)
T ss_dssp             HHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-
Confidence            999999874  45788889999999999999999999999887644 67889999999999999999999999998864 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-----CCCCHH
Q 012126          303 NPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKG-----FSPHFS  377 (470)
Q Consensus       303 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~~~~~~  377 (470)
                      +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+..     ......
T Consensus       341 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  419 (537)
T 3fp2_A          341 PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIG  419 (537)
T ss_dssp             TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHH
Confidence            3356788899999999999999999999998863 3456788889999999999999999999987642     111223


Q ss_pred             HHHHHHHHHHcc----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcc
Q 012126          378 VSHALIKGFCNV----------GKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       378 ~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      .+......+...          |++++|...|++.++... .+...|..+..+|.+.|++++|.+.++++++..
T Consensus       420 ~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          420 PLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDP-RSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             HHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            344555667777          999999999999988643 367889999999999999999999999999754

>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=1.1e-19  Score=168.75  Aligned_cols=327  Identities=11%  Similarity=0.037  Sum_probs=177.4

Q ss_pred             HHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHH
Q 012126           95 NSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILEL  174 (470)
Q Consensus        95 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~  174 (470)
                      ...+..+...+.+.|++++|...++.+.... |.+..++..+...+...|++++|+..|+++.+.  .|+.......+..
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~   79 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIAL--KMDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCcchHHHHHHH
Confidence            4556666677777777777777777776654 456667777777777777777777777776653  2322222223333


Q ss_pred             HHhcCCChhhHHHHHHHHHHCCCC--CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Q 012126          175 LVTHRNYLRPAFDLFKSAHKHGVL--PNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQV  252 (470)
Q Consensus       175 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  252 (470)
                      ++...|++++|...|+++.+....  .+...+..+...+.                       ...+..+...+...|++
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCH
Confidence            333444455555555555544310  02222222210000                       00011113445555555


Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhc
Q 012126          253 NRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDM  332 (470)
Q Consensus       253 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  332 (470)
                      ++|++.++++.+.... +...+..+..++...|++++|...+++..+.. +.+...+..+...+...|++++|...+++.
T Consensus       137 ~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  214 (359)
T 3ieg_A          137 TAAITFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVREC  214 (359)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5555555555544322 44455555555555555555555555555442 224455555555555555555555555555


Q ss_pred             hhCCCCCCHHHHH------------HHHHHHHhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHccCCHHHHH
Q 012126          333 PSNGCLPNLVSYR------------TLVGGLCDQGMFDVAKKYMQLMISKGFSPHF----SVSHALIKGFCNVGKVDEAC  396 (470)
Q Consensus       333 ~~~~~~p~~~~~~------------~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~  396 (470)
                      .+.. +.+...+.            .+...+...|++++|...++++.+.. +.+.    ..+..+..++...|++++|.
T Consensus       215 ~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          215 LKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHHHccCHHHHH
Confidence            5432 11122111            22445667777777777777776643 1122    22344566677777777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCceeeecccc
Q 012126          397 GVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIVEAGIG  454 (470)
Q Consensus       397 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~~~~  454 (470)
                      +.+++.++.. +.+..+|..+..++...|++++|.+.++++++  +.|+.......+.
T Consensus       293 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~~~~~l~  347 (359)
T 3ieg_A          293 RICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQE--HNENDQQIREGLE  347 (359)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHHHHHHH
T ss_pred             HHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCChHHHHHHH
Confidence            7777776643 22566777777777777777777777777774  3455444333333

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.89  E-value=7.4e-21  Score=185.81  Aligned_cols=342  Identities=11%  Similarity=-0.047  Sum_probs=278.4

Q ss_pred             HHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHH
Q 012126           95 NSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILEL  174 (470)
Q Consensus        95 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~  174 (470)
                      ...+......+.+.|++++|...|+.+....  |++.++..+..+|...|++++|++.|+++.+.+  |+.......+..
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~   81 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK--PDYSKVLLRRAS   81 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC--hHHHHHHHHHHH
Confidence            4567777888999999999999999999876  589999999999999999999999999998843  655444444555


Q ss_pred             HHhcCCChhhHHHHHHHHHHCCCCC-------------------------------------------------------
Q 012126          175 LVTHRNYLRPAFDLFKSAHKHGVLP-------------------------------------------------------  199 (470)
Q Consensus       175 ~~~~~~~~~~a~~~~~~~~~~~~~~-------------------------------------------------------  199 (470)
                      ++...|++++|...|+++.+.+...                                                       
T Consensus        82 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (514)
T 2gw1_A           82 ANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSV  161 (514)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCH
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchh
Confidence            5557778999999999998765310                                                       


Q ss_pred             -----------------------CHHHHHHHHHHHHh---cCChhHHHHHHHHHHH-----CCC--------CCCHHHHH
Q 012126          200 -----------------------NTKSYNIMMRAFCF---NGDISIAYTLFNKMFE-----RGV--------MPDVESYR  240 (470)
Q Consensus       200 -----------------------~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~-----~~~--------~p~~~~~~  240 (470)
                                             +...+......+..   .|++++|..+|+++.+     ...        +.+..++.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (514)
T 2gw1_A          162 TSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLE  241 (514)
T ss_dssp             HHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHH
Confidence                                   13333333333443   8999999999999987     311        12456788


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 012126          241 ILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREG  320 (470)
Q Consensus       241 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  320 (470)
                      .+...+...|++++|+..++++.+....  ..++..+..++...|++++|...++++.+.. +.+...+..+...+...|
T Consensus       242 ~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  318 (514)
T 2gw1_A          242 HTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQ  318 (514)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhC
Confidence            8899999999999999999999887544  8888999999999999999999999998763 346778899999999999


Q ss_pred             CHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 012126          321 RAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLE  400 (470)
Q Consensus       321 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  400 (470)
                      ++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...|...|++++|...++
T Consensus       319 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~  396 (514)
T 2gw1_A          319 NYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYD  396 (514)
T ss_dssp             CTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999998864 2356788889999999999999999999998863 3456788999999999999999999999


Q ss_pred             HHHHCCCC-CC----HHHHHHHHHHHHc---CCcHHHHHHHHHHHHHccccCCce
Q 012126          401 ELLKAGEA-PH----EDTWVMIVPQICA---GEEMEKLGEVLNEIVKVEIKGDTR  447 (470)
Q Consensus       401 ~~~~~~~~-p~----~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~~p~~~  447 (470)
                      ++.+.... ++    ...|..+..++..   .|++++|.+.++++++.  .|+..
T Consensus       397 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~  449 (514)
T 2gw1_A          397 LAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKL--DPRSE  449 (514)
T ss_dssp             HHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHh--CcccH
Confidence            98764311 11    3388999999999   99999999999999865  35443

>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=2.7e-19  Score=166.04  Aligned_cols=325  Identities=12%  Similarity=0.013  Sum_probs=246.4

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 012126           63 CRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAE  142 (470)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  142 (470)
                      ..++..+...|+++.|+..|+.+....  +.+...+..+...+...|++++|...++.+.+.. |.+...+..+...|..
T Consensus         7 ~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   83 (359)
T 3ieg_A            7 LELGKKLLAAGQLADALSQFHAAVDGD--PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLK   83 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHH
Confidence            355677889999999999999987654  4578899999999999999999999999998875 6678899999999999


Q ss_pred             cCCchhHHHHHHHHHhCCCcc---CHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhH
Q 012126          143 SNLPDRALKTFRSMLEFNCKP---LPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISI  219 (470)
Q Consensus       143 ~g~~~~A~~~~~~~~~~~~~p---~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  219 (470)
                      .|++++|+..|+++.+.  .|   +.......+..+.                       ....+..+...+...|++++
T Consensus        84 ~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~-----------------------~~~~~~~~a~~~~~~~~~~~  138 (359)
T 3ieg_A           84 QGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKAD-----------------------EMQRLRSQALDAFDGADYTA  138 (359)
T ss_dssp             HTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHHTTCHHH
T ss_pred             cCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHH-----------------------HHHHHHHHHHHHHHccCHHH
Confidence            99999999999999884  45   3332222221111                       11234445667778888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012126          220 AYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKV  299 (470)
Q Consensus       220 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  299 (470)
                      |.++++++.+.... +...+..+..++...|++++|+..++++.+.... +..++..+...+...|++++|...+++..+
T Consensus       139 A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  216 (359)
T 3ieg_A          139 AITFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLKSD-NTEAFYKISTLYYQLGDHELSLSEVRECLK  216 (359)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            88888888776433 6677778888888888888888888888776543 667777888888888888888888888776


Q ss_pred             cCCCCCHHHHH------------HHHHHHHhcCCHhHHHHHHHhchhCCCCCC-H----HHHHHHHHHHHhcCChHHHHH
Q 012126          300 KGCNPDIVHYN------------TVVLGFCREGRAIDACKVLEDMPSNGCLPN-L----VSYRTLVGGLCDQGMFDVAKK  362 (470)
Q Consensus       300 ~~~~~~~~~~~------------~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~----~~~~~li~~~~~~g~~~~a~~  362 (470)
                      .. +.+...+.            .+...+.+.|++++|...++++.+..  |+ .    ..+..+...+...|++++|..
T Consensus       217 ~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~  293 (359)
T 3ieg_A          217 LD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIR  293 (359)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            52 22233222            23566888999999999999988753  33 2    234557788899999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          363 YMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQIC  422 (470)
Q Consensus       363 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  422 (470)
                      .+++..+.. +.+..++..+..+|...|++++|.+.|++.++... -+...+..+..+..
T Consensus       294 ~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p-~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          294 ICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNE-NDQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CChHHHHHHHHHHH
Confidence            999998863 44678899999999999999999999999988542 23556666555443

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.85  E-value=7.1e-19  Score=161.28  Aligned_cols=292  Identities=12%  Similarity=-0.062  Sum_probs=198.6

Q ss_pred             CCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCH-HHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHH
Q 012126          128 VTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLP-KQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNI  206 (470)
Q Consensus       128 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  206 (470)
                      .+...+..+...+...|++++|+++|+++.+..  |+. ..+..+...+ ...|++++|..+++++.+.... +...|..
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~-~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~   95 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD--PFHASCLPVHIGTL-VELNKANELFYLSHKLVDLYPS-NPVSWFA   95 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTTHHHHHHHH-HHHTCHHHHHHHHHHHHHHCTT-STHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCChhhHHHHHHHH-HHhhhHHHHHHHHHHHHHhCcC-CHHHHHH
Confidence            444556666666666677777777776666532  222 2222222222 2444566677766666654432 5667777


Q ss_pred             HHHHHHhcC-ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 012126          207 MMRAFCFNG-DISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKK  285 (470)
Q Consensus       207 li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  285 (470)
                      +...+...| ++++|.+.|++..+.... +...|..+..++...|++++|++.++++.+.... +...+..+...|...|
T Consensus        96 l~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~  173 (330)
T 3hym_B           96 VGCYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTN  173 (330)
T ss_dssp             HHHHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHh
Confidence            777777777 788888888877766433 4566777777888888888888888887766433 4455666777788888


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCC--------CCCCHHHHHHHHHHHHhcCCh
Q 012126          286 KLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNG--------CLPNLVSYRTLVGGLCDQGMF  357 (470)
Q Consensus       286 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------~~p~~~~~~~li~~~~~~g~~  357 (470)
                      ++++|...+++..+.. +.+...+..+...+...|++++|...++++.+..        ...+...+..+...+...|++
T Consensus       174 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  252 (330)
T 3hym_B          174 NSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKY  252 (330)
T ss_dssp             CHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCH
Confidence            8888888888877653 3356777777888888888888888887766531        123456778888888888888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HcCCcHH
Q 012126          358 DVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQI-CAGEEME  428 (470)
Q Consensus       358 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~g~~~  428 (470)
                      ++|...++++.+.. +.+...+..+..+|...|++++|.+.|++..+.. +.+...+..+..++ ...|+.+
T Consensus       253 ~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          253 AEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCchh
Confidence            88888888888753 3356778888888888888888888888887754 23566777777777 3455543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.85  E-value=4.7e-16  Score=150.85  Aligned_cols=351  Identities=13%  Similarity=0.048  Sum_probs=294.8

Q ss_pred             hHHHHHHHhc----CCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHc----cCCchHHHHHHHHHhhCCCCCCHHHH
Q 012126           62 PCRVQKLIAS----QSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGR----AKYFSLIDDILITLKSEHYPVTPSLF  133 (470)
Q Consensus        62 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  133 (470)
                      ...+...+..    .++++.|+..|+.+...+    +...+..+...+..    .+++++|..++++..+.+   ++..+
T Consensus        42 ~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~----~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  114 (490)
T 2xm6_A           42 QLELGYRYFQGNETTKDLTQAMDWFRRAAEQG----YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQ  114 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            3455566666    899999999999987653    56788888888888    899999999999998876   67888


Q ss_pred             HHHHHHHHH----cCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHh---cCCChhhHHHHHHHHHHCCCCCCHHHHHH
Q 012126          134 TYLIKIYAE----SNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVT---HRNYLRPAFDLFKSAHKHGVLPNTKSYNI  206 (470)
Q Consensus       134 ~~li~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  206 (470)
                      ..|...|..    .+++++|++.|++..+.|   +...+..+-..+..   ..++.++|.+.|++..+.|   +...+..
T Consensus       115 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~  188 (490)
T 2xm6_A          115 QNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQ  188 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            889999988    889999999999998865   34444444444433   1567999999999999875   7788899


Q ss_pred             HHHHHHh----cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 012126          207 MMRAFCF----NGDISIAYTLFNKMFERGVMPDVESYRILMQGLCR----KSQVNRAVDLLEDMLNKGFVPDTLSYTTLL  278 (470)
Q Consensus       207 li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  278 (470)
                      +...|..    .+++++|.++|++..+.|   +...+..+...|..    .+++++|+++|++..+.|   +...+..+.
T Consensus       189 Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg  262 (490)
T 2xm6_A          189 LGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLG  262 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHH
T ss_pred             HHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            9999988    899999999999998876   66788888888887    889999999999998875   556777788


Q ss_pred             HHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-----CCHhHHHHHHHhchhCCCCCCHHHHHHHHH
Q 012126          279 NSLCR----KKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCRE-----GRAIDACKVLEDMPSNGCLPNLVSYRTLVG  349 (470)
Q Consensus       279 ~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  349 (470)
                      .+|..    .++.++|...|++..+.|   +...+..+...|...     +++++|+..|++..+.|   +...+..+..
T Consensus       263 ~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  336 (490)
T 2xm6_A          263 YILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGA  336 (490)
T ss_dssp             HHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHH
Confidence            88887    899999999999998775   566777888888887     89999999999998875   5667777888


Q ss_pred             HHHhcC---ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          350 GLCDQG---MFDVAKKYMQLMISKGFSPHFSVSHALIKGFCN----VGKVDEACGVLEELLKAGEAPHEDTWVMIVPQIC  422 (470)
Q Consensus       350 ~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  422 (470)
                      .|...|   +.++|..++++..+.|   +...+..+...|..    .+++++|.+.|++..+.|   +...+..|...|.
T Consensus       337 ~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~  410 (490)
T 2xm6_A          337 IYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYY  410 (490)
T ss_dssp             HHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHH
Confidence            887766   7899999999999874   67788888888988    899999999999999876   6788888999898


Q ss_pred             c----CCcHHHHHHHHHHHHHcccc
Q 012126          423 A----GEEMEKLGEVLNEIVKVEIK  443 (470)
Q Consensus       423 ~----~g~~~~a~~~~~~m~~~~~~  443 (470)
                      .    .++.++|.+.|++..+.+..
T Consensus       411 ~g~g~~~d~~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          411 YGLGVERDYVQAWAWFDTASTNDMN  435 (490)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHHHCC
T ss_pred             cCCCCCCCHHHHHHHHHHHHHCCCC
Confidence            8    89999999999999988743

>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=99.85  E-value=1.2e-18  Score=171.25  Aligned_cols=342  Identities=14%  Similarity=0.074  Sum_probs=260.9

Q ss_pred             HHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHH
Q 012126           95 NSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILEL  174 (470)
Q Consensus        95 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~  174 (470)
                      ...+..+...+.+.|++++|...|+.+.... |.++.++..+..+|...|++++|++.|+++.+.  .|+.......+..
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~  101 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEI--KPDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHH
Confidence            4567888889999999999999999998876 678999999999999999999999999999884  3655555555555


Q ss_pred             HHhcCCChhhHHHHHHHHHHCCCC------------------------------------CCHH----------------
Q 012126          175 LVTHRNYLRPAFDLFKSAHKHGVL------------------------------------PNTK----------------  202 (470)
Q Consensus       175 ~~~~~~~~~~a~~~~~~~~~~~~~------------------------------------~~~~----------------  202 (470)
                      +....|++++|...|+.+......                                    |+..                
T Consensus       102 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVS  181 (537)
T ss_dssp             HHHHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHH
Confidence            555777899999999643211100                                    1111                


Q ss_pred             --------------HHHHHHHHHH--------hcCChhHHHHHHHHHHHCCCCCC-------HHHHHHHHHHHHHcCChH
Q 012126          203 --------------SYNIMMRAFC--------FNGDISIAYTLFNKMFERGVMPD-------VESYRILMQGLCRKSQVN  253 (470)
Q Consensus       203 --------------~~~~li~~~~--------~~g~~~~a~~~~~~m~~~~~~p~-------~~~~~~ll~~~~~~~~~~  253 (470)
                                    ....+...+.        ..|++++|..+|+++.+.... +       ..++..+...+...|+++
T Consensus       182 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~  260 (537)
T 3fp2_A          182 SVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFHFLKNNLL  260 (537)
T ss_dssp             TSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHHhcccHH
Confidence                          1111111111        124788999999998876433 2       235667778888999999


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhch
Q 012126          254 RAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMP  333 (470)
Q Consensus       254 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  333 (470)
                      +|+..++++.+..  |+..++..+...+...|++++|...++++.+.. +.+..+|..+...+...|++++|...++++.
T Consensus       261 ~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  337 (537)
T 3fp2_A          261 DAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQ  337 (537)
T ss_dssp             HHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            9999999998864  457788889999999999999999999998764 3467889999999999999999999999988


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC-----C
Q 012126          334 SNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGE-----A  408 (470)
Q Consensus       334 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-----~  408 (470)
                      +.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|.+.|+++++...     .
T Consensus       338 ~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~  415 (537)
T 3fp2_A          338 SLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIH  415 (537)
T ss_dssp             HHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCS
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhH
Confidence            764 2346788889999999999999999999998864 44567888999999999999999999999876421     1


Q ss_pred             CCHHHHHHHHHHHHcC----------CcHHHHHHHHHHHHHccccCCce
Q 012126          409 PHEDTWVMIVPQICAG----------EEMEKLGEVLNEIVKVEIKGDTR  447 (470)
Q Consensus       409 p~~~~~~~l~~~~~~~----------g~~~~a~~~~~~m~~~~~~p~~~  447 (470)
                      .....+..+..++...          |++++|...++++++.  .|+..
T Consensus       416 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~  462 (537)
T 3fp2_A          416 VGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL--DPRSE  462 (537)
T ss_dssp             STTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh--CCCCH
Confidence            1222344555667777          9999999999999865  35443

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.84  E-value=3.4e-18  Score=156.71  Aligned_cols=289  Identities=10%  Similarity=-0.045  Sum_probs=174.8

Q ss_pred             HHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHH
Q 012126           96 STYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELL  175 (470)
Q Consensus        96 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~  175 (470)
                      ..+..+...+...|++++|.++++.+.+.. |.+...+..++..+...|++++|+..++++.+.  .|+.......+..+
T Consensus        23 ~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~   99 (330)
T 3hym_B           23 DVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDL--YPSNPVSWFAVGCY   99 (330)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTSTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHH
Confidence            344444555555555555555555555443 334444555555555556666666666555542  22222222222222


Q ss_pred             HhcCC-ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHH
Q 012126          176 VTHRN-YLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNR  254 (470)
Q Consensus       176 ~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  254 (470)
                      +...| ++++|...|++..+.... +...|..+...+...|++++|.+.|++..+.... +...+..+...+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~  177 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKL  177 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHH
Confidence            22333 556666666666554322 4566777777777777777777777777665433 34555567777777777777


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--------CCCCHHHHHHHHHHHHhcCCHhHHH
Q 012126          255 AVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKG--------CNPDIVHYNTVVLGFCREGRAIDAC  326 (470)
Q Consensus       255 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--------~~~~~~~~~~li~~~~~~~~~~~a~  326 (470)
                      |++.++++.+.... +..++..+...+...|++++|...+++..+..        .+.....+..+...|.+.|++++|.
T Consensus       178 A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  256 (330)
T 3hym_B          178 AERFFSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEAL  256 (330)
T ss_dssp             HHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHH
Confidence            77777777766433 56677777777777777777777777766531        1223456777777777777777777


Q ss_pred             HHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HccCCH
Q 012126          327 KVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGF-CNVGKV  392 (470)
Q Consensus       327 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~~  392 (470)
                      ..+++..+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+..++ ...|+.
T Consensus       257 ~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          257 DYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCch
Confidence            7777776643 2345667777777777788888887777776642 33555666666666 445543

>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=99.81  E-value=6.4e-18  Score=157.53  Aligned_cols=256  Identities=15%  Similarity=0.084  Sum_probs=188.7

Q ss_pred             cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVD  257 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  257 (470)
                      ..|++++|...|+++.+... .+...+..+..++...|++++|.+.|+++.+.+.. +..++..+..++...|++++|++
T Consensus        76 ~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~  153 (368)
T 1fch_A           76 QEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQACE  153 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHH
Confidence            34445666666666555442 25666777777777777777777777777766433 66677777777777777777777


Q ss_pred             HHHHHHhCCCCCCHhhHHH---------------HHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCC
Q 012126          258 LLEDMLNKGFVPDTLSYTT---------------LLNSLCRKKKLREAYKLLCRMKVKGCNP-DIVHYNTVVLGFCREGR  321 (470)
Q Consensus       258 ~~~~~~~~~~~~~~~~~~~---------------ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~  321 (470)
                      .++++.+.... +...+..               .+..+...|++++|...++++.+..... +..++..+...|.+.|+
T Consensus       154 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~  232 (368)
T 1fch_A          154 ILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGE  232 (368)
T ss_dssp             HHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCC
Confidence            77777765433 2222211               2333348899999999999988763211 47888889999999999


Q ss_pred             HhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 012126          322 AIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEE  401 (470)
Q Consensus       322 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  401 (470)
                      +++|+..++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+..+|.+.|++++|...|++
T Consensus       233 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  310 (368)
T 1fch_A          233 YDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLE  310 (368)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999988753 3357788889999999999999999999988863 45677889999999999999999999999


Q ss_pred             HHHCCCCC----------CHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Q 012126          402 LLKAGEAP----------HEDTWVMIVPQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       402 ~~~~~~~p----------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  438 (470)
                      +++.....          ...+|..+..+|...|++++|..++++.+
T Consensus       311 al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          311 ALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             HHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             HHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHH
Confidence            87642211          26789999999999999999998876543

>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=99.80  E-value=6.4e-18  Score=157.55  Aligned_cols=288  Identities=8%  Similarity=-0.075  Sum_probs=186.2

Q ss_pred             CCchHHHH-HHHHHhhCCC---CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhh
Q 012126          109 KYFSLIDD-ILITLKSEHY---PVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRP  184 (470)
Q Consensus       109 ~~~~~a~~-~~~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~  184 (470)
                      +++++|.. .++.......   ..+...+..+...+...|++++|+..|+++.+.  .|+.......+..++...|++++
T Consensus        39 ~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           39 SDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             -------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCcCHHH
Confidence            45555555 5554433210   002334555666666666666666666666653  23333333333333345555666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHH---------------HHHHHHHc
Q 012126          185 AFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRI---------------LMQGLCRK  249 (470)
Q Consensus       185 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~---------------ll~~~~~~  249 (470)
                      |...|+++.+... .+..++..+...|...|++++|.+.|+++.+.... +...+..               .+..+...
T Consensus       117 A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (368)
T 1fch_A          117 AISALRRCLELKP-DNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSD  194 (368)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHH
T ss_pred             HHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhc
Confidence            6666666665543 26677777777777778888888877777765432 2222211               23334478


Q ss_pred             CChHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHH
Q 012126          250 SQVNRAVDLLEDMLNKGFVP-DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKV  328 (470)
Q Consensus       250 ~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  328 (470)
                      |++++|+..++++.+..... +..++..+..+|.+.|++++|...++++.+.. +.+...|..+...+...|++++|...
T Consensus       195 ~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  273 (368)
T 1fch_A          195 SLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAA  273 (368)
T ss_dssp             HHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            88888888888887764332 46778888888888888888888888887763 33567788888888888888888888


Q ss_pred             HHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC----------CCHHHHHHHHHHHHccCCHHHHHHH
Q 012126          329 LEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFS----------PHFSVSHALIKGFCNVGKVDEACGV  398 (470)
Q Consensus       329 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~----------~~~~~~~~li~~~~~~g~~~~a~~~  398 (470)
                      ++++.+.. +.+...+..+..+|.+.|++++|...++++.+....          ....+|..+..+|...|++++|..+
T Consensus       274 ~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  352 (368)
T 1fch_A          274 YRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  352 (368)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHh
Confidence            88887753 335677888888888888888888888888764211          1257888888888888988888888


Q ss_pred             HHHH
Q 012126          399 LEEL  402 (470)
Q Consensus       399 ~~~~  402 (470)
                      +++.
T Consensus       353 ~~~~  356 (368)
T 1fch_A          353 DARD  356 (368)
T ss_dssp             HTTC
T ss_pred             HHHH
Confidence            7643

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.80  E-value=1.5e-14  Score=140.32  Aligned_cols=321  Identities=12%  Similarity=0.064  Sum_probs=270.2

Q ss_pred             CHHHHHHHHHHHHc----cCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH----cCCchhHHHHHHHHHhCCCccCH
Q 012126           94 SNSTYLILILKLGR----AKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAE----SNLPDRALKTFRSMLEFNCKPLP  165 (470)
Q Consensus        94 ~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~p~~  165 (470)
                      +...+..+...+..    .+++++|...++...+.+   ++..+..|...|..    .+++++|++.|++..+.|   +.
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            56667777777776    899999999999998875   67889999999999    899999999999998865   44


Q ss_pred             HHHHHHHHHHHhc---CCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCCHHH
Q 012126          166 KQLNRILELLVTH---RNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCF----NGDISIAYTLFNKMFERGVMPDVES  238 (470)
Q Consensus       166 ~~~~~ll~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~  238 (470)
                      ..+..+-..+...   .+++++|...|++..+.|   +...+..|...|..    .+++++|.++|++..+.|   +...
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            4444444444331   567999999999999875   67788888888887    889999999999999876   7788


Q ss_pred             HHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 012126          239 YRILMQGLCR----KSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR----KKKLREAYKLLCRMKVKGCNPDIVHYN  310 (470)
Q Consensus       239 ~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~  310 (470)
                      +..+...|..    .++.++|++.|++..+.|   +...+..+..+|..    .++.++|...|++..+.|   +...+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  259 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQF  259 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            8889999988    899999999999998875   56778888888886    889999999999998875   566777


Q ss_pred             HHHHHHHh----cCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhc-----CChHHHHHHHHHHHHCCCCCCHHHHHH
Q 012126          311 TVVLGFCR----EGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQ-----GMFDVAKKYMQLMISKGFSPHFSVSHA  381 (470)
Q Consensus       311 ~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~  381 (470)
                      .+...|..    .++.++|+..|++..+.|   +...+..+...|...     +++++|...+++..+.|   +...+..
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  333 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQAN  333 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHH
Confidence            78888887    899999999999998765   566777788888877     89999999999999875   4567777


Q ss_pred             HHHHHHccC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCcHHHHHHHHHHHHHcc
Q 012126          382 LIKGFCNVG---KVDEACGVLEELLKAGEAPHEDTWVMIVPQICA----GEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       382 li~~~~~~g---~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~  441 (470)
                      +...|...|   ++++|.++|++..+.|   +...+..|...|..    .+++++|.+.+++..+.+
T Consensus       334 lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~  397 (490)
T 2xm6_A          334 LGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG  397 (490)
T ss_dssp             HHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC
Confidence            888887766   8899999999999874   78889999999988    899999999999998865

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.79  E-value=2.9e-17  Score=152.97  Aligned_cols=274  Identities=12%  Similarity=-0.034  Sum_probs=164.4

Q ss_pred             ChHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012126           61 SPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIY  140 (470)
Q Consensus        61 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  140 (470)
                      .....+..+...|+++.|+..|+.+....  +.+...+..+...+.+.|++++|...++++.... |.+..++..+...|
T Consensus        67 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  143 (365)
T 4eqf_A           67 GAFEEGLKRLKEGDLPVTILFMEAAILQD--PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSY  143 (365)
T ss_dssp             THHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            34555666677777777777777776543  3456677777777777777777777777776654 45667777777777


Q ss_pred             HHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHH
Q 012126          141 AESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIA  220 (470)
Q Consensus       141 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  220 (470)
                      ...|++++|++.|+++.+.+  |+.......+                         ......+..+...+...|++++|
T Consensus       144 ~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~-------------------------~~~~~~~~~l~~~~~~~g~~~~A  196 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQN--PKYKYLVKNK-------------------------KGSPGLTRRMSKSPVDSSVLEGV  196 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--HHHHCC--------------------------------------------CCHHHHHH
T ss_pred             HccccHHHHHHHHHHHHHhC--ccchHHHhhh-------------------------ccchHHHHHHHHHHhhhhhHHHH
Confidence            77777777777777766522  2111100000                         00122344455666666777777


Q ss_pred             HHHHHHHHHCCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012126          221 YTLFNKMFERGVM-PDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKV  299 (470)
Q Consensus       221 ~~~~~~m~~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  299 (470)
                      .++|+++.+.... .+..++..+...|...|++++|++.|+++.+.... +..++..+..+|.+.|++++|...|++..+
T Consensus       197 ~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  275 (365)
T 4eqf_A          197 KELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPE-DYSLWNRLGATLANGDRSEEAVEAYTRALE  275 (365)
T ss_dssp             HHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            7777766665322 14566666667777777777777777776665433 556666677777777777777777777665


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCC-----------CCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 012126          300 KGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCL-----------PNLVSYRTLVGGLCDQGMFDVAKKYMQL  366 (470)
Q Consensus       300 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-----------p~~~~~~~li~~~~~~g~~~~a~~~~~~  366 (470)
                      .. +.+..++..+..+|.+.|++++|...|+++.+....           .+...|..+..++...|+.+.+..+..+
T Consensus       276 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          276 IQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             cC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            52 223566666777777777777777777766543100           1245667777777777777777666554

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.79  E-value=5.6e-19  Score=174.83  Aligned_cols=151  Identities=15%  Similarity=0.217  Sum_probs=126.4

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHH---CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFE---RGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTT  276 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  276 (470)
                      -..|||+||++||+.|++++|.++|++|.+   .|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||.+||++
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            457899999999999999999999988764   58999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCC------HHHHHHHHH
Q 012126          277 LLNSLCRKKK-LREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN------LVSYRTLVG  349 (470)
Q Consensus       277 ll~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~------~~~~~~li~  349 (470)
                      +|+++++.|+ .++|.++|++|.+.|+.||..+|+.++.++.+.    .+++..+++ ..+..|+      ..+...|.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHH
Confidence            9999999998 578999999999999999999999999776654    344445554 2334443      334444555


Q ss_pred             HHHhcC
Q 012126          350 GLCDQG  355 (470)
Q Consensus       350 ~~~~~g  355 (470)
                      .|.+.+
T Consensus       281 l~s~d~  286 (1134)
T 3spa_A          281 VYAKDG  286 (1134)
T ss_dssp             HHCCCS
T ss_pred             HHccCC
Confidence            555544

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.78  E-value=5.3e-17  Score=148.52  Aligned_cols=275  Identities=13%  Similarity=0.009  Sum_probs=156.7

Q ss_pred             ChHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012126           61 SPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIY  140 (470)
Q Consensus        61 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  140 (470)
                      ........+...|+++.|+.+|+.+....  +.+...+..+...+.+.|++++|...++.+.+.. |.+..++..+...|
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~   99 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQAA--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   99 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHH
Confidence            44566788889999999999999987654  4578888899999999999999999999998875 66788899999999


Q ss_pred             HHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHH--HHHhcCChh
Q 012126          141 AESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMR--AFCFNGDIS  218 (470)
Q Consensus       141 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~--~~~~~g~~~  218 (470)
                      ...|++++|++.|+++.+..  |+.......+..                      ..|+......+..  .+...|+++
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~~  155 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQ----------------------ADVDIDDLNVQSEDFFFAAPNEYR  155 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTS--TTTTTC------------------------------------------CCTTSHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhH----------------------HHHHHHHHHHHHHhHHHHHcccHH
Confidence            99999999999999988743  322211111100                      0001111111111  133444455


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012126          219 IAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMK  298 (470)
Q Consensus       219 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  298 (470)
                      +|.+.++++.+.... +..++..+...+...|++++|++.++++.+.... +..++..+..++...|++++|...+++..
T Consensus       156 ~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  233 (327)
T 3cv0_A          156 ECRTLLHAALEMNPN-DAQLHASLGVLYNLSNNYDSAAANLRRAVELRPD-DAQLWNKLGATLANGNRPQEALDAYNRAL  233 (327)
T ss_dssp             HHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555554443322 3444444455555555555555555554443222 34444455555555555555555555544


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCC-----------CHHHHHHHHHHHHhcCChHHHHHHHH
Q 012126          299 VKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLP-----------NLVSYRTLVGGLCDQGMFDVAKKYMQ  365 (470)
Q Consensus       299 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-----------~~~~~~~li~~~~~~g~~~~a~~~~~  365 (470)
                      +.. +.+...+..+...|.+.|++++|...++++.+.....           +...|..+..++...|++++|..+++
T Consensus       234 ~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  310 (327)
T 3cv0_A          234 DIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYA  310 (327)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTT
T ss_pred             HcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            432 1234444455555555555555555555544321110           23445555555555555555555544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.78  E-value=5.6e-19  Score=174.81  Aligned_cols=115  Identities=20%  Similarity=0.240  Sum_probs=63.4

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHH---HcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHH
Q 012126          271 TLSYTTLLNSLCRKKKLREAYKLLCRMK---VKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTL  347 (470)
Q Consensus       271 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  347 (470)
                      ..+|++||++||+.|++++|.++|++|.   ..|+.||++|||+||.+||+.|++++|.++|++|.+.|+.||.+||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            3455555555555555555555555443   2345555555555555555555555555555555555555555555555


Q ss_pred             HHHHHhcCCh-HHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 012126          348 VGGLCDQGMF-DVAKKYMQLMISKGFSPHFSVSHALIKG  385 (470)
Q Consensus       348 i~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~  385 (470)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|++++..
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~  245 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSE  245 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccCh
Confidence            5555555542 4555555555555555555555555543

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.78  E-value=8.3e-17  Score=147.20  Aligned_cols=235  Identities=11%  Similarity=-0.002  Sum_probs=172.8

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHH--
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTL--  277 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--  277 (470)
                      +...+..+...+...|++++|.+.|+++.+.... +..++..+...+...|++++|++.++++.+.... +...+..+  
T Consensus        54 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~  131 (327)
T 3cv0_A           54 REEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQ  131 (327)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TTTC------
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhH
Confidence            4555666666666667777777766666665322 5566666666666777777777777666655332 22222222  


Q ss_pred             ------------HH-HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHH
Q 012126          278 ------------LN-SLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSY  344 (470)
Q Consensus       278 ------------l~-~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  344 (470)
                                  .. .+...|++++|...++++.+.. +.+...+..+...|...|++++|...++++.+.. +.+...+
T Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  209 (327)
T 3cv0_A          132 ADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLW  209 (327)
T ss_dssp             --------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHH
Confidence                        22 3667788999999999888763 3367788888899999999999999999887753 3357788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-----------CHHH
Q 012126          345 RTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAP-----------HEDT  413 (470)
Q Consensus       345 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-----------~~~~  413 (470)
                      ..+...+...|++++|...++++.+.. +.+..++..+..+|...|++++|.+.++++.+.....           +...
T Consensus       210 ~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  288 (327)
T 3cv0_A          210 NKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSM  288 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHH
Confidence            888999999999999999999988863 4467788899999999999999999999987753221           3678


Q ss_pred             HHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          414 WVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       414 ~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      |..+..++.+.|++++|..++++.++
T Consensus       289 ~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          289 WDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            88999999999999999999876643

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.78  E-value=3.6e-17  Score=152.35  Aligned_cols=234  Identities=11%  Similarity=0.038  Sum_probs=175.5

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC---------CC
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV---------PD  270 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---------~~  270 (470)
                      +..+|..+...|...|++++|...|+++.+.... +..++..+..+|...|++++|++.++++.+....         ..
T Consensus        98 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~  176 (365)
T 4eqf_A           98 DAEAWQFLGITQAENENEQAAIVALQRCLELQPN-NLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGS  176 (365)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccc
Confidence            5667777788888888888888888887776433 5777778888888888888888888887764321         01


Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHH
Q 012126          271 TLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCN-PDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVG  349 (470)
Q Consensus       271 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  349 (470)
                      ...+..+...+...|++++|...++++.+.... .+..++..+...|.+.|++++|+..++++.+.. +.+..+|..+..
T Consensus       177 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  255 (365)
T 4eqf_A          177 PGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGA  255 (365)
T ss_dssp             ------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            223344577888899999999999999876321 157888899999999999999999999988753 346788999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC-----------CCHHHHHHHH
Q 012126          350 GLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEA-----------PHEDTWVMIV  418 (470)
Q Consensus       350 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-----------p~~~~~~~l~  418 (470)
                      +|...|++++|...++++.+.. +.+..++..+..+|...|++++|...|+++++....           .+...|..+.
T Consensus       256 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~  334 (365)
T 4eqf_A          256 TLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALR  334 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHH
Confidence            9999999999999999998863 445788899999999999999999999998764211           1357889999


Q ss_pred             HHHHcCCcHHHHHHHHHH
Q 012126          419 PQICAGEEMEKLGEVLNE  436 (470)
Q Consensus       419 ~~~~~~g~~~~a~~~~~~  436 (470)
                      .++...|+.+.+.++.++
T Consensus       335 ~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          335 IALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHcCcHHHHHHHHHh
Confidence            999999999888877654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.78  E-value=3.6e-15  Score=146.14  Aligned_cols=362  Identities=9%  Similarity=0.002  Sum_probs=209.2

Q ss_pred             hcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHH-HHcCCchh
Q 012126           70 ASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIY-AESNLPDR  148 (470)
Q Consensus        70 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~~~~  148 (470)
                      ...|+.+.|..+|+.+....  |.+...|...+..+.+.|++++|..+|+++....  |+...|...+... ...|+.+.
T Consensus        23 ~~~~~~~~a~~~~e~al~~~--P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~~~~~~~~~~~~   98 (530)
T 2ooe_A           23 AQNQPIDKARKTYERLVAQF--PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLSYVRETKGKLPS   98 (530)
T ss_dssp             HHSSCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHHHHHHHTTTSTT
T ss_pred             HHhCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHccchhh
Confidence            56899999999999998664  5678899999999999999999999999998875  4788888777533 45688888


Q ss_pred             HHH----HHHHHHh-CCCcc-CHHHHHHHHHHHHh--------cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH--
Q 012126          149 ALK----TFRSMLE-FNCKP-LPKQLNRILELLVT--------HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFC--  212 (470)
Q Consensus       149 A~~----~~~~~~~-~~~~p-~~~~~~~ll~~~~~--------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~--  212 (470)
                      |.+    +|++.+. .|..| +...|...+.....        ..|+++.|..+|++.++.........|........  
T Consensus        99 a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~  178 (530)
T 2ooe_A           99 YKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGI  178 (530)
T ss_dssp             HHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhh
Confidence            776    6776654 35444 45566666555432        14568999999999998421111344544443321  


Q ss_pred             -----------hcCChhHHHHHHHHHH------HCC---CCCC--------HHHHHHHHHHHHHc----CCh----HHHH
Q 012126          213 -----------FNGDISIAYTLFNKMF------ERG---VMPD--------VESYRILMQGLCRK----SQV----NRAV  256 (470)
Q Consensus       213 -----------~~g~~~~a~~~~~~m~------~~~---~~p~--------~~~~~~ll~~~~~~----~~~----~~a~  256 (470)
                                 ..++++.|..++.++.      +..   +.|+        ...|...+......    ++.    +.+.
T Consensus       179 ~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~  258 (530)
T 2ooe_A          179 NIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVM  258 (530)
T ss_dssp             CHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHH
T ss_pred             chhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHH
Confidence                       2334566666555421      111   2222        12333333222111    121    2455


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHHh-------cCCHH-------HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 012126          257 DLLEDMLNKGFVPDTLSYTTLLNSLCR-------KKKLR-------EAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRA  322 (470)
Q Consensus       257 ~~~~~~~~~~~~~~~~~~~~ll~~~~~-------~~~~~-------~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  322 (470)
                      .+|++++...+. +...|..+...+.+       .|+++       +|..++++..+.-.+.+...|..++..+.+.|++
T Consensus       259 ~~y~~al~~~p~-~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~  337 (530)
T 2ooe_A          259 FAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKY  337 (530)
T ss_dssp             HHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCH
Confidence            556665554322 45555555555543       45554       5666666665421222455566666666666666


Q ss_pred             hHHHHHHHhchhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHccCCHHHHHHHH
Q 012126          323 IDACKVLEDMPSNGCLPN--LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKG-FCNVGKVDEACGVL  399 (470)
Q Consensus       323 ~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~a~~~~  399 (470)
                      ++|..+|+++.+.  .|+  ...|..++..+.+.|++++|.++|++..+.. +.+...|...... +...|++++|..+|
T Consensus       338 ~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~  414 (530)
T 2ooe_A          338 EKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIF  414 (530)
T ss_dssp             HHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHH
T ss_pred             HHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHH
Confidence            6666666666653  232  1355555555556666666666666665532 1122222221111 22456666666666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          400 EELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       400 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      ++.++.. +.+...|..++..+.+.|+.++|..+|++++..
T Consensus       415 e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          415 ELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             HHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhc
Confidence            6655532 124556666666666666666666666666554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.77  E-value=1.5e-14  Score=141.64  Aligned_cols=370  Identities=9%  Similarity=0.006  Sum_probs=265.1

Q ss_pred             HHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHH-HccCCchHHHH----HHHHHhhC-CC-CCCHHHHHHH
Q 012126           64 RVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKL-GRAKYFSLIDD----ILITLKSE-HY-PVTPSLFTYL  136 (470)
Q Consensus        64 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~-~~~~~~~~a~~----~~~~~~~~-~~-~~~~~~~~~l  136 (470)
                      ....+....|+.+.|..+|+.+....   |+...|...+... ...|+++.|.+    +|+..... |. +.+..+|...
T Consensus        51 ~~~~~~~~~~~~~~a~~~~~ral~~~---p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~  127 (530)
T 2ooe_A           51 LYIEAEIKAKNYDKVEKLFQRCLMKV---LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDY  127 (530)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHTTTC---CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcC---CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHH
Confidence            44566778899999999999998664   4777777776533 45678887765    67666543 43 3467888888


Q ss_pred             HHHHHH---------cCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHh------------cCCChhhHHHHHHHHH--
Q 012126          137 IKIYAE---------SNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVT------------HRNYLRPAFDLFKSAH--  193 (470)
Q Consensus       137 i~~~~~---------~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~------------~~~~~~~a~~~~~~~~--  193 (470)
                      +.....         .|+++.|..+|++.+..........|.........            ..+.+..|..++..+.  
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~  207 (530)
T 2ooe_A          128 INFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETV  207 (530)
T ss_dssp             HHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            887665         78899999999999883211112333332221110            1223556666666532  


Q ss_pred             ----HCC---CCCC--------HHHHHHHHHHHHhc----CCh----hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH--
Q 012126          194 ----KHG---VLPN--------TKSYNIMMRAFCFN----GDI----SIAYTLFNKMFERGVMPDVESYRILMQGLCR--  248 (470)
Q Consensus       194 ----~~~---~~~~--------~~~~~~li~~~~~~----g~~----~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--  248 (470)
                          +..   +.|+        ...|...+......    ++.    +.+..+|++.....+ -+...|..++..+.+  
T Consensus       208 ~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p-~~~~~w~~~~~~~~~~~  286 (530)
T 2ooe_A          208 MKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLG-HHPDIWYEAAQYLEQSS  286 (530)
T ss_dssp             HHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHH
T ss_pred             HHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhc
Confidence                211   2333        24566555443322    232    377889999887643 378888888888876  


Q ss_pred             -----cCChH-------HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-H-HHHHHHHH
Q 012126          249 -----KSQVN-------RAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPD-I-VHYNTVVL  314 (470)
Q Consensus       249 -----~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~-~~~~~li~  314 (470)
                           .|+++       +|..+|++..+.-.+-+...|..++..+.+.|++++|..+|+++.+.  .|+ . ..|..++.
T Consensus       287 ~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~  364 (530)
T 2ooe_A          287 KLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMK  364 (530)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHH
T ss_pred             hhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHH
Confidence                 69987       89999999986322336788999999999999999999999999986  454 2 57888999


Q ss_pred             HHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHH-HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 012126          315 GFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGG-LCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVD  393 (470)
Q Consensus       315 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  393 (470)
                      .+.+.|++++|..+|++..+.. +.+...|...+.. +...|+.++|..+|+..++.. +.+...|..++..+.+.|+.+
T Consensus       365 ~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~  442 (530)
T 2ooe_A          365 FARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDN  442 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHh
Confidence            8999999999999999998753 2233333332222 346899999999999998863 446789999999999999999


Q ss_pred             HHHHHHHHHHHCCC-CC--CHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcc
Q 012126          394 EACGVLEELLKAGE-AP--HEDTWVMIVPQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       394 ~a~~~~~~~~~~~~-~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      +|..+|++.+..+. .|  ....|...+......|+.+.+..+.+++.+.-
T Consensus       443 ~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          443 NTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             HHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            99999999998642 22  24488888888888999999999999998653

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.75  E-value=3.3e-16  Score=140.49  Aligned_cols=249  Identities=14%  Similarity=0.100  Sum_probs=126.6

Q ss_pred             HHHHcCCchhHHHHHHHHHhCCCccCHH--HHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 012126          139 IYAESNLPDRALKTFRSMLEFNCKPLPK--QLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGD  216 (470)
Q Consensus       139 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~--~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  216 (470)
                      .....|+++.|+..++.....  .|+..  ....+...+. ..|+++.|...++.    .-.|+..++..+...+...|+
T Consensus         8 ~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi-~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~   80 (291)
T 3mkr_A            8 NAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYL-AQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSR   80 (291)
T ss_dssp             HHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHH-HTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTT
T ss_pred             HHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHH-HCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCc
Confidence            334566666666666554332  23321  1122222222 34445555554432    122345555555566666666


Q ss_pred             hhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 012126          217 ISIAYTLFNKMFERGVMP-DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLC  295 (470)
Q Consensus       217 ~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  295 (470)
                      .++|.+.++++...+..| +...+..+..++...|++++|++.+++      ..+...+..+..+|.+.|++++|...++
T Consensus        81 ~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~  154 (291)
T 3mkr_A           81 RDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELK  154 (291)
T ss_dssp             HHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            666666666665554333 334444445556666666666666554      2345555555666666666666666666


Q ss_pred             HHHHcCCCCCHHHH---HHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 012126          296 RMKVKGCNPDIVHY---NTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF  372 (470)
Q Consensus       296 ~m~~~~~~~~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  372 (470)
                      ++.+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|...++++++.. 
T Consensus       155 ~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-  230 (291)
T 3mkr_A          155 KMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-  230 (291)
T ss_dssp             HHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            665542  332111   11222233345566666666665554 23345555555556666666666666666655542 


Q ss_pred             CCCHHHHHHHHHHHHccCCHHH-HHHHHHHHHH
Q 012126          373 SPHFSVSHALIKGFCNVGKVDE-ACGVLEELLK  404 (470)
Q Consensus       373 ~~~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~  404 (470)
                      +-+..++..++..+...|+.++ +.++++++++
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            2344555555555555555543 3455555555

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.75  E-value=5.8e-15  Score=142.45  Aligned_cols=361  Identities=13%  Similarity=-0.021  Sum_probs=154.9

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhcC-------CCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhC-----C--CCC
Q 012126           63 CRVQKLIASQSDPLLAKEIFDYASRQ-------PNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSE-----H--YPV  128 (470)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~--~~~  128 (470)
                      ..++.+....|+.++|++.|+.+...       ..-+....+|..+...+...|++++|...+++..+.     +  ...
T Consensus        55 n~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~  134 (472)
T 4g1t_A           55 NLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIE  134 (472)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchh
Confidence            34445555555555555555544220       001123345555555555555555555555544321     0  011


Q ss_pred             CHHHHHHHHHHHHHc--CCchhHHHHHHHHHhCCCccCHHHHHHHHHHH---HhcCCChhhHHHHHHHHHHCCCCCCHHH
Q 012126          129 TPSLFTYLIKIYAES--NLPDRALKTFRSMLEFNCKPLPKQLNRILELL---VTHRNYLRPAFDLFKSAHKHGVLPNTKS  203 (470)
Q Consensus       129 ~~~~~~~li~~~~~~--g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~  203 (470)
                      .+.++..+..++...  +++++|++.|++..+.  .|+...+..-+..+   ....+..++|++.+++..+.... +...
T Consensus       135 ~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~~~~  211 (472)
T 4g1t_A          135 SPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-NQYL  211 (472)
T ss_dssp             CHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-CHHH
T ss_pred             hHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-chHH
Confidence            234444444444333  2355555555555542  23322222211111   11233345555555555544321 3344


Q ss_pred             HHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 012126          204 YNIMMRAFCF----NGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLN  279 (470)
Q Consensus       204 ~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  279 (470)
                      +..+...+..    .|++++|.+++++....... +..++..+...|...|++++|++.+++..+..+. +..++..+..
T Consensus       212 ~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~  289 (472)
T 4g1t_A          212 KVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLHCQIGC  289 (472)
T ss_dssp             HHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHHHHHHH
Confidence            4433333322    23445555555555544322 4445555555555555555555555555554322 3444444444


Q ss_pred             HHHhc-------------------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCC
Q 012126          280 SLCRK-------------------KKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN  340 (470)
Q Consensus       280 ~~~~~-------------------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  340 (470)
                      +|...                   +..+.|...++...+.. +.+...+..+...|...|++++|+..|++..+....+.
T Consensus       290 ~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~  368 (472)
T 4g1t_A          290 CYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPV  368 (472)
T ss_dssp             HHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCCh
Confidence            43221                   12334444444444332 12334444555555555555555555555554322111


Q ss_pred             HH--HHHHHHH-HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 012126          341 LV--SYRTLVG-GLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMI  417 (470)
Q Consensus       341 ~~--~~~~li~-~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  417 (470)
                      ..  .+..+.. .....|+.++|+..+.+.++.  .|+....         .+..+.+.++++..++.+ +.+..+|..+
T Consensus       369 ~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~---------~~~~~~l~~~~~~~l~~~-p~~~~~~~~L  436 (472)
T 4g1t_A          369 AKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREK---------EKMKDKLQKIAKMRLSKN-GADSEALHVL  436 (472)
T ss_dssp             HHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHH---------HHHHHHHHHHHHHHHHHC-C-CTTHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHH---------HHHHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            10  1111111 123445555555555555543  2221111         111222333344443333 2356789999


Q ss_pred             HHHHHcCCcHHHHHHHHHHHHHcc
Q 012126          418 VPQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       418 ~~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      ..+|...|++++|++.|++.++.+
T Consensus       437 G~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          437 AFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             HHHHHHHHHCC-------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC
Confidence            999999999999999999999764

>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=3.8e-17  Score=150.09  Aligned_cols=220  Identities=10%  Similarity=0.091  Sum_probs=63.6

Q ss_pred             HHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 012126          132 LFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAF  211 (470)
Q Consensus       132 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  211 (470)
                      +|..|+.++.+.|++++|++.|.+.      +|...|..+...+. ..|.+++|...++..++.  .+++.+.+.++.+|
T Consensus        34 vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae-~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y  104 (449)
T 1b89_A           34 VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAAN-TSGNWEELVKYLQMARKK--ARESYVETELIFAL  104 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHh--CccchhHHHHHHHH
Confidence            4444444444444444444444321      23333333333332 233344444433333332  12344455555555


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 012126          212 CFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAY  291 (470)
Q Consensus       212 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  291 (470)
                      .+.|+++++.++++       .|+..+|..+...|...|.+++|..+|..+         ..|..++.++.+.|++++|.
T Consensus       105 ~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AV  168 (449)
T 1b89_A          105 AKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAV  168 (449)
T ss_dssp             ----CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHH
T ss_pred             HHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHH
Confidence            55555555554442       134445555555555555555555555543         24555555555555555555


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 012126          292 KLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKG  371 (470)
Q Consensus       292 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  371 (470)
                      +.++++      .++.+|..++.+|+..|+++.|......+.     .+..-...++..|.+.|.+++|..+++..+...
T Consensus       169 ea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le  237 (449)
T 1b89_A          169 DGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGLE  237 (449)
T ss_dssp             HHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST
T ss_pred             HHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc
Confidence            555555      145555555555555555555544333322     122223345555555555555555555554432


Q ss_pred             CCCCHHHHHHHHHHHHc
Q 012126          372 FSPHFSVSHALIKGFCN  388 (470)
Q Consensus       372 ~~~~~~~~~~li~~~~~  388 (470)
                       +-...+|+-+..+|++
T Consensus       238 -~ah~~~ftel~il~~k  253 (449)
T 1b89_A          238 -RAHMGMFTELAILYSK  253 (449)
T ss_dssp             -TCCHHHHHHHHHHHHT
T ss_pred             -HHHHHHHHHHHHHHHh
Confidence             2334444444444443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.74  E-value=2e-15  Score=135.45  Aligned_cols=251  Identities=14%  Similarity=0.121  Sum_probs=158.8

Q ss_pred             HHHHccCCchHHHHHHHHHhhCCCCCC--HHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCC
Q 012126          103 LKLGRAKYFSLIDDILITLKSEHYPVT--PSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRN  180 (470)
Q Consensus       103 ~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~  180 (470)
                      +.....|+++.|+...+......  |+  ......+..+|...|+++.|+..++..    ..|+...+.. +..++...+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~--p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~-la~~~~~~~   79 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSS--PERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRM-FAEYLASHS   79 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCS--HHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHH-HHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHhcccCC--chhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHH-HHHHHcCCC
Confidence            34455666666666665543332  22  223445666777777777766655331    1232333333 333334555


Q ss_pred             ChhhHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHH
Q 012126          181 YLRPAFDLFKSAHKHGVLP-NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLL  259 (470)
Q Consensus       181 ~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  259 (470)
                      +.++|++.++++...+..| +...+..+...+...|++++|++.+++      ..+...+..++..+.+.|++++|++.|
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            6777777777776655334 455566666777777888888877766      346677777777788888888888888


Q ss_pred             HHHHhCCCCCCHhhH---HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCC
Q 012126          260 EDMLNKGFVPDTLSY---TTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNG  336 (470)
Q Consensus       260 ~~~~~~~~~~~~~~~---~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  336 (470)
                      +++.+..  |+....   ..++..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|...+++..+..
T Consensus       154 ~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            8777654  332111   22334444557788888888888776 34567777778888888888888888888877653


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHH-HHHHHHHHHHC
Q 012126          337 CLPNLVSYRTLVGGLCDQGMFDV-AKKYMQLMISK  370 (470)
Q Consensus       337 ~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~  370 (470)
                       +-+..++..++..+...|+.++ +.++++++.+.
T Consensus       231 -p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          231 -SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence             2356677777777777887765 56777777764

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.71  E-value=1.3e-16  Score=146.65  Aligned_cols=289  Identities=13%  Similarity=0.023  Sum_probs=131.3

Q ss_pred             HHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHc
Q 012126           64 RVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAES  143 (470)
Q Consensus        64 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  143 (470)
                      .+..++...|+.++|.++++...       .+.+|..++.++.+.|++++|++.|.+.      ++...|..++..+...
T Consensus         8 a~~~ll~~~~~ld~A~~fae~~~-------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~   74 (449)
T 1b89_A            8 AVQVLIEHIGNLDRAYEFAERCN-------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTS   74 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHccCHHHHHHHHHhCC-------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhC
Confidence            35567778889999999999772       2358999999999999999999999652      4677899999999999


Q ss_pred             CCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 012126          144 NLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTL  223 (470)
Q Consensus       144 g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  223 (470)
                      |++++|+..++...+.  .+++.+.+.++..+. ..|+++++.++++       .|+..+|+.+...|...|.+++|..+
T Consensus        75 g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~-Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~  144 (449)
T 1b89_A           75 GNWEELVKYLQMARKK--ARESYVETELIFALA-KTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLL  144 (449)
T ss_dssp             -------------------------------------CHHHHTTTTT-------CC----------------CTTTHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CccchhHHHHHHHHH-HhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999987766653  445566666666666 4566888887774       26778999999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 012126          224 FNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCN  303 (470)
Q Consensus       224 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~  303 (470)
                      |..+         ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......+.     
T Consensus       145 Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----  204 (449)
T 1b89_A          145 YNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----  204 (449)
T ss_dssp             HHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----
T ss_pred             HHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----
Confidence            9976         48899999999999999999999988      278999999999999999999966555432     


Q ss_pred             CCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhc--CChHHHHHHHHHHHHCCCCC------C
Q 012126          304 PDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQ--GMFDVAKKYMQLMISKGFSP------H  375 (470)
Q Consensus       304 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~--g~~~~a~~~~~~~~~~~~~~------~  375 (470)
                      ..+.....++..|.+.|++++|+.+++...... +-....|+.+.-+|++-  ++..+.+++|..-  .+++|      +
T Consensus       205 ~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~--ini~k~~~~~~~  281 (449)
T 1b89_A          205 VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSR--VNIPKVLRAAEQ  281 (449)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT--SCHHHHHHHHHT
T ss_pred             hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hcCcHHHHHHHH
Confidence            244445578899999999999999999987654 45677788877777764  3333444433311  12222      3


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHH
Q 012126          376 FSVSHALIKGFCNVGKVDEACGV  398 (470)
Q Consensus       376 ~~~~~~li~~~~~~g~~~~a~~~  398 (470)
                      ...|.-++..|...++++.|...
T Consensus       282 ~~~w~e~~~ly~~~~e~d~A~~t  304 (449)
T 1b89_A          282 AHLWAELVFLYDKYEEYDNAIIT  304 (449)
T ss_dssp             TTCHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhhchHHHHHHH
Confidence            45788888889999999988764

>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=99.71  E-value=1.3e-13  Score=141.25  Aligned_cols=317  Identities=15%  Similarity=0.127  Sum_probs=238.8

Q ss_pred             HHHHHHhcCCChHHHHHHHHHhhcCCC-CCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 012126           64 RVQKLIASQSDPLLAKEIFDYASRQPN-FRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAE  142 (470)
Q Consensus        64 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  142 (470)
                      ...+.+...|++.+|+++++.+...+. |.-+...-+.++...++. +..+..+....+...    +   ...+...+..
T Consensus       990 ~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~eIA~Iai~ 1061 (1630)
T 1xi4_A          990 VTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APDIANIAIS 1061 (1630)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHHHHHHHHh
Confidence            344667789999999999999875543 344555666677777776 456666666655422    1   3447788888


Q ss_pred             cCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 012126          143 SNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYT  222 (470)
Q Consensus       143 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  222 (470)
                      .|.+++|..+|++...         +...+..+....+.+++|.++.++.      -+..+|..+..++...|++++|.+
T Consensus      1062 lglyEEAf~IYkKa~~---------~~~A~~VLie~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAId 1126 (1630)
T 1xi4_A         1062 NELFEEAFAIFRKFDV---------NTSAVQVLIEHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAID 1126 (1630)
T ss_pred             CCCHHHHHHHHHHcCC---------HHHHHHHHHHHHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            9999999999998632         2222233333455689999988865      257889999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 012126          223 LFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGC  302 (470)
Q Consensus       223 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  302 (470)
                      .|.+.      -|...|..++.++.+.|++++|+++|....+..  ++....+.++.+|++.+++++.....    +   
T Consensus      1127 sYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~--- 1191 (1630)
T 1xi4_A         1127 SYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N--- 1191 (1630)
T ss_pred             HHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---
Confidence            99664      278888999999999999999999999877764  34444556899999999988644442    2   


Q ss_pred             CCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 012126          303 NPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHAL  382 (470)
Q Consensus       303 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  382 (470)
                      .++...|..+...|...|++++|..+|...         ..|..+...+.+.|++++|.+.+++.      .+..+|..+
T Consensus      1192 ~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev 1256 (1630)
T 1xi4_A         1192 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEV 1256 (1630)
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHH
Confidence            346677778899999999999999999985         37889999999999999999999876      345677777


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Q 012126          383 IKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  438 (470)
                      -.+|...|++..|......     +..+...+..++..|.+.|.+++|+.+++..+
T Consensus      1257 ~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1257 CFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAAL 1307 (1630)
T ss_pred             HHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            7778888887777776543     23456667777777888888888888887776

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.70  E-value=1.6e-14  Score=139.32  Aligned_cols=305  Identities=12%  Similarity=-0.063  Sum_probs=131.6

Q ss_pred             HHHHHHHHHHHHccCCchHHHHHHHHHhhC--------CCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhC-----C-
Q 012126           95 NSTYLILILKLGRAKYFSLIDDILITLKSE--------HYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEF-----N-  160 (470)
Q Consensus        95 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~-  160 (470)
                      ...|+.+...+...|++++|++.+++..+.        ..+....+|+.+..+|...|++++|...+++..+.     + 
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            344555555555555555555555543221        11223444555555555555555555555544321     0 


Q ss_pred             Ccc-CHHHHHHHHHHHH-hcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH---HHhcCChhHHHHHHHHHHHCCCCCC
Q 012126          161 CKP-LPKQLNRILELLV-THRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRA---FCFNGDISIAYTLFNKMFERGVMPD  235 (470)
Q Consensus       161 ~~p-~~~~~~~ll~~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~---~~~~g~~~~a~~~~~~m~~~~~~p~  235 (470)
                      ..+ ....+...-.++. ...+++++|...|++..+..+. +...+..+..+   +...++.++|++.+++..+.+.. +
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~  208 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-N  208 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-C
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-c
Confidence            011 1222222211111 1233455555555555544321 33333333222   22344555555555555544322 3


Q ss_pred             HHHHHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 012126          236 VESYRILMQGLCR----KSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNT  311 (470)
Q Consensus       236 ~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  311 (470)
                      ..++..+...+..    .+++++|.+.+++....... +..++..+...|...|++++|...+++..+.. +-+..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHH
Confidence            3344333333322    23445555555555544322 44455555555555555555555555555441 112333443


Q ss_pred             HHHHHHhc-------------------CCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 012126          312 VVLGFCRE-------------------GRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF  372 (470)
Q Consensus       312 li~~~~~~-------------------~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  372 (470)
                      +...|...                   +.+++|...++...+.. +.+...+..+...+...|++++|...|++.++...
T Consensus       287 lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~  365 (472)
T 4g1t_A          287 IGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKEL  365 (472)
T ss_dssp             HHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCC
Confidence            33333211                   12344555555544432 12233444455555555555555555555555322


Q ss_pred             CCCH--HHHHHHHH-HHHccCCHHHHHHHHHHHHH
Q 012126          373 SPHF--SVSHALIK-GFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       373 ~~~~--~~~~~li~-~~~~~g~~~~a~~~~~~~~~  404 (470)
                      .+..  .++..+.. .....|+.++|+..|++.++
T Consensus       366 ~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~  400 (472)
T 4g1t_A          366 TPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK  400 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            2111  11122211 12344555555555555544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.69  E-value=9.4e-15  Score=128.57  Aligned_cols=227  Identities=13%  Similarity=0.058  Sum_probs=177.2

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC--CC----HhhH
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV--PD----TLSY  274 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~  274 (470)
                      ...+..+...+...|++++|...|++..+..  .+..++..+..++...|++++|++.++++.+....  ++    ..++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4567778888888888888888888888776  57788888888888888888888888887764321  11    4677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhc
Q 012126          275 TTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQ  354 (470)
Q Consensus       275 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  354 (470)
                      ..+..++...|++++|...|++..+.  .|+.       ..+.+.|++++|...++.+.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            88888888888888888888888775  3442       34566778888888888887742 22456677788888888


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHH
Q 012126          355 GMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVL  434 (470)
Q Consensus       355 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  434 (470)
                      |++++|...++++.+.. +.+..++..+..+|...|++++|...+++.++.. +.+...|..+..++...|++++|.+.+
T Consensus       153 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            99999999998888763 4467788888888889999999999999888754 235778888888899999999999999


Q ss_pred             HHHHHcc
Q 012126          435 NEIVKVE  441 (470)
Q Consensus       435 ~~m~~~~  441 (470)
                      +++.+..
T Consensus       231 ~~a~~~~  237 (258)
T 3uq3_A          231 DAARTKD  237 (258)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhC
Confidence            8887654

>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=99.67  E-value=2.8e-13  Score=120.48  Aligned_cols=225  Identities=8%  Similarity=-0.084  Sum_probs=177.2

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCCHhhHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCR----KSQVNRAVDLLEDMLNKGFVPDTLSYT  275 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  275 (470)
                      +..++..+...|...|++++|.+.|++..+.+   +...+..+...|..    .+++++|++.|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            56677777788888888888888888887743   55677777788888    888888888888887775   667777


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHhHHHHHHHhchhCCCCCCHHHHHHH
Q 012126          276 TLLNSLCR----KKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCR----EGRAIDACKVLEDMPSNGCLPNLVSYRTL  347 (470)
Q Consensus       276 ~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  347 (470)
                      .+..+|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|+..|++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            78888888    888888888888887764   66777778888888    888888888888887765   56667777


Q ss_pred             HHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          348 VGGLCD----QGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCN----VGKVDEACGVLEELLKAGEAPHEDTWVMIVP  419 (470)
Q Consensus       348 i~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  419 (470)
                      ...|..    .+++++|...+++..+.+   +...+..+...|..    .+++++|.+.|++..+.+   +...+..+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~  226 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  226 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            777777    888888888888888764   45677777788888    888888888888888764   3677777888


Q ss_pred             HHHc----CCcHHHHHHHHHHHHHccc
Q 012126          420 QICA----GEEMEKLGEVLNEIVKVEI  442 (470)
Q Consensus       420 ~~~~----~g~~~~a~~~~~~m~~~~~  442 (470)
                      .|..    .+++++|.+.+++..+.+.
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence            8887    8888888888888887653

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.66  E-value=2e-14  Score=123.14  Aligned_cols=195  Identities=14%  Similarity=0.037  Sum_probs=98.5

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 012126          237 ESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGF  316 (470)
Q Consensus       237 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  316 (470)
                      ..+..+...+...|++++|+..|++..+..+. +...+..+..++.+.|++++|...+++..+.. +.+...+..+...+
T Consensus         6 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~   83 (217)
T 2pl2_A            6 QNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAY   83 (217)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            34444444444444444444444444443322 34444444444444444444444444444431 11233444444444


Q ss_pred             Hhc-----------CCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 012126          317 CRE-----------GRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKG  385 (470)
Q Consensus       317 ~~~-----------~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  385 (470)
                      .+.           |++++|+..+++..+.. +-+...+..+..++...|++++|+..+++.++..  .+...+..+..+
T Consensus        84 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~  160 (217)
T 2pl2_A           84 VALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAEL  160 (217)
T ss_dssp             HHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHH
T ss_pred             HHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHH
Confidence            444           66666666666666532 1234556666666666677777777776666654  456666666666


Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHH
Q 012126          386 FCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEI  437 (470)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m  437 (470)
                      |...|++++|...|++.++... .+...+..+..++...|++++|.+.+++.
T Consensus       161 ~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          161 YLSMGRLDEALAQYAKALEQAP-KDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTC--------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6677777777777776666432 24556666666666777777776666654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.66  E-value=2.3e-14  Score=122.68  Aligned_cols=200  Identities=14%  Similarity=0.030  Sum_probs=164.5

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 012126          198 LPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTL  277 (470)
Q Consensus       198 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  277 (470)
                      +++...+..+...+...|++++|...|++..+..+. +...+..+..++.+.|++++|+..+++..+..+. +...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHH
Confidence            356778899999999999999999999999987654 7889999999999999999999999999987654 77888999


Q ss_pred             HHHHHhc-----------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHH
Q 012126          278 LNSLCRK-----------KKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRT  346 (470)
Q Consensus       278 l~~~~~~-----------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  346 (470)
                      ..++...           |++++|...+++..+.. +-+...+..+...+...|++++|+..|++..+..  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            9999999           99999999999998873 3357788899999999999999999999999876  68889999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELL  403 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  403 (470)
                      +..++...|++++|...++++.+.. +.+...+..+...+...|++++|...|++.-
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            9999999999999999999999863 4567888999999999999999999988753

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.65  E-value=3.4e-14  Score=126.19  Aligned_cols=248  Identities=10%  Similarity=0.002  Sum_probs=190.3

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC--HhhHHHHHH
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPD--TLSYTTLLN  279 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~  279 (470)
                      ..+......+...|++++|...|++..+.... +...+..+..++...|++++|++.++++.+.+..++  ..+|..+..
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            34556677888999999999999999887543 556888888899999999999999999988432222  234788889


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHH
Q 012126          280 SLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDV  359 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  359 (470)
                      ++...|++++|...|++..+.. +.+...+..+...|...|++++|+..+++..+.. +.+...+..+...+...+++++
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~  160 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVK  160 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999988763 3356788899999999999999999999988762 3356667766634445569999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC---HHHHHHHHHHHHHCC-CCCC------HHHHHHHHHHHHcCCcHHH
Q 012126          360 AKKYMQLMISKGFSPHFSVSHALIKGFCNVGK---VDEACGVLEELLKAG-EAPH------EDTWVMIVPQICAGEEMEK  429 (470)
Q Consensus       360 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~-~~p~------~~~~~~l~~~~~~~g~~~~  429 (470)
                      |...++++.+.. +.+...+..+..++...|+   +++|...+++..+.. -.|+      ..+|..+...|...|++++
T Consensus       161 A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  239 (272)
T 3u4t_A          161 ADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVK  239 (272)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHH
Confidence            999999998863 3446777778888888888   888888888876531 1123      2577888889999999999


Q ss_pred             HHHHHHHHHHccccCCceeeecccch
Q 012126          430 LGEVLNEIVKVEIKGDTRIVEAGIGL  455 (470)
Q Consensus       430 a~~~~~~m~~~~~~p~~~~~~~~~~~  455 (470)
                      |.+.++++++.  .|+.......++.
T Consensus       240 A~~~~~~al~~--~p~~~~a~~~l~~  263 (272)
T 3u4t_A          240 ADAAWKNILAL--DPTNKKAIDGLKM  263 (272)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHC-
T ss_pred             HHHHHHHHHhc--CccHHHHHHHhhh
Confidence            99999999854  5766555444443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.63  E-value=1.1e-13  Score=121.66  Aligned_cols=213  Identities=12%  Similarity=0.080  Sum_probs=147.4

Q ss_pred             CCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC--CC----HHHHHHHHHHHHHcCCh
Q 012126          179 RNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVM--PD----VESYRILMQGLCRKSQV  252 (470)
Q Consensus       179 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--p~----~~~~~~ll~~~~~~~~~  252 (470)
                      .|++++|...|++..+..  .+...+..+..++...|++++|.+.+++..+....  ++    ..++..+..++...|++
T Consensus        18 ~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   95 (258)
T 3uq3_A           18 ARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDL   95 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             hccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccH
Confidence            344555555555555444  35566777777777777777777777776654221  11    46677777777777777


Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhc
Q 012126          253 NRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDM  332 (470)
Q Consensus       253 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  332 (470)
                      ++|++.|+++.+..  |+       ...+.+.|++++|...++.+.... +.+...+..+...+...|++++|...++++
T Consensus        96 ~~A~~~~~~a~~~~--~~-------~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  165 (258)
T 3uq3_A           96 KKTIEYYQKSLTEH--RT-------ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEM  165 (258)
T ss_dssp             HHHHHHHHHHHHHC--CC-------HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC--ch-------hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            77777777777643  23       234556677788888888777652 224556777777788888888888888887


Q ss_pred             hhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          333 PSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       333 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      .+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|.+.+++..+.
T Consensus       166 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          166 IKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            7653 2356777778888888888888888888887753 345677888888888888888888888887663

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.63  E-value=2.3e-13  Score=119.31  Aligned_cols=201  Identities=13%  Similarity=0.052  Sum_probs=117.2

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNS  280 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  280 (470)
                      ...+..+...+...|++++|.+.|+++.+.... +..++..+..++...|++++|++.++++.+.... +...+..+..+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASDSR-NARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHH
Confidence            455666666777777777777777776665322 5566666666677777777777777666655332 45556666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHH
Q 012126          281 LCRKKKLREAYKLLCRMKVKGCNP-DIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDV  359 (470)
Q Consensus       281 ~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  359 (470)
                      |...|++++|.+.++++.+.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            666666666666666665522222 33445555555666666666666666655432 1234455555555556666666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          360 AKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       360 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      |...++++.+.. +.+...+..+...+...|++++|.++++++.+.
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            666665555432 234445555555555556666666666555553

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.63  E-value=1.4e-14  Score=128.78  Aligned_cols=246  Identities=11%  Similarity=-0.030  Sum_probs=178.4

Q ss_pred             CCChhhHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHH
Q 012126          179 RNYLRPAFDLFKSAHKHGVL---PNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRA  255 (470)
Q Consensus       179 ~~~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  255 (470)
                      .+++++|+..|+++.+....   .+...+..+...+...|++++|...|++..+.... +..++..+..++...|++++|
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCHHHH
Confidence            35577788888887765321   14567788888888999999999999888877543 678888888889999999999


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhC
Q 012126          256 VDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSN  335 (470)
Q Consensus       256 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  335 (470)
                      ++.|+++.+.... +..++..+..+|.+.|++++|...++++.+.  .|+.......+..+...|++++|...+++....
T Consensus        97 ~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           97 YEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            9999988876543 5678888888888999999999999988876  344444444555566778899999998777664


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHH
Q 012126          336 GCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFS---PHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHED  412 (470)
Q Consensus       336 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  412 (470)
                      . +++...+. ++..+...++.++|...+.+..+....   .+..++..+...|...|++++|...|++.++..  |+. 
T Consensus       174 ~-~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~-  248 (275)
T 1xnf_A          174 S-DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VHN-  248 (275)
T ss_dssp             S-CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CTT-
T ss_pred             C-CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--chh-
Confidence            2 33434443 666777778888888888887654211   114677888888999999999999999988754  422 


Q ss_pred             HHHHHHHHHHcCCcHHHHHHHH
Q 012126          413 TWVMIVPQICAGEEMEKLGEVL  434 (470)
Q Consensus       413 ~~~~l~~~~~~~g~~~~a~~~~  434 (470)
                       +.....++...|++++|++.+
T Consensus       249 -~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 -FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             -CHHHHHHHHHHHHHHHC----
T ss_pred             -HHHHHHHHHHHHHHHhhHHHH
Confidence             233355667778888887766

>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=99.63  E-value=2.7e-12  Score=131.67  Aligned_cols=316  Identities=11%  Similarity=0.077  Sum_probs=232.7

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 012126           63 CRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAE  142 (470)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  142 (470)
                      ..++.++...|.+++|..+|+...      ......+.++.   ..+++++|.++.++.      .++.+|..+..++..
T Consensus      1053 ~eIA~Iai~lglyEEAf~IYkKa~------~~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~ 1117 (1630)
T 1xi4_A         1053 PDIANIAISNELFEEAFAIFRKFD------VNTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQ 1117 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcC------CHHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHh
Confidence            446777788888999999988763      12223333332   667788888888755      257788999999999


Q ss_pred             cCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 012126          143 SNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYT  222 (470)
Q Consensus       143 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  222 (470)
                      .|++++|++.|.+.      -|...|..+...+. ..|++++|.+.|...++..  ++....+.++.+|++.+++++...
T Consensus      1118 ~G~~kEAIdsYiKA------dD~say~eVa~~~~-~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~ 1188 (1630)
T 1xi4_A         1118 KGMVKEAIDSYIKA------DDPSSYMEVVQAAN-TSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEE 1188 (1630)
T ss_pred             CCCHHHHHHHHHhc------CChHHHHHHHHHHH-HcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHH
Confidence            99999999998664      34556666555554 6677999999998877755  333333458888888888885433


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 012126          223 LFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGC  302 (470)
Q Consensus       223 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~  302 (470)
                      .    ++   .++...|..+...|...|++++|..+|...         ..|..+..+|.+.|++++|.+.+++..    
T Consensus      1189 f----I~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~---- 1248 (1630)
T 1xi4_A         1189 F----IN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN---- 1248 (1630)
T ss_pred             H----Hh---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC----
Confidence            3    22   235567777888999999999999999884         378889999999999999999998763    


Q ss_pred             CCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 012126          303 NPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHAL  382 (470)
Q Consensus       303 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  382 (470)
                        +..+|..+..+|...|++..|......+.     .+...+..++..|.+.|.+++|+.+++..+... +-....|+-+
T Consensus      1249 --n~~aWkev~~acve~~Ef~LA~~cgl~Ii-----v~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftEL 1320 (1630)
T 1xi4_A         1249 --STRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTEL 1320 (1630)
T ss_pred             --CHHHHHHHHHHHhhhhHHHHHHHHHHhhh-----cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHH
Confidence              67889989999999999998888766432     356677789999999999999999998887654 3344566666


Q ss_pred             HHHHHcc--CCHHHHHHHHHHHHHCCCCC------CHHHHHHHHHHHHcCCcHHHHHH
Q 012126          383 IKGFCNV--GKVDEACGVLEELLKAGEAP------HEDTWVMIVPQICAGEEMEKLGE  432 (470)
Q Consensus       383 i~~~~~~--g~~~~a~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~a~~  432 (470)
                      ...|++.  ++..++.++|..-..  +++      +...|.-++-.|.+.|+++.|..
T Consensus      1321 aiLyaKy~peklmEhlk~f~~rin--i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1321 AILYSKFKPQKMREHLELFWSRVN--IPKVLRAAEQAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhcc--cchHhHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            6666654  455555555553322  222      46689999999999999999984

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.63  E-value=2.9e-13  Score=118.70  Aligned_cols=206  Identities=11%  Similarity=0.012  Sum_probs=177.5

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 012126          236 VESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLG  315 (470)
Q Consensus       236 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  315 (470)
                      ...+..+...+...|++++|++.|+++.+.... +..++..+..+|...|++++|.+.++++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            567788889999999999999999999887543 67889999999999999999999999998774 3367888999999


Q ss_pred             HHhcCCHhHHHHHHHhchhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHH
Q 012126          316 FCREGRAIDACKVLEDMPSNGCLP-NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDE  394 (470)
Q Consensus       316 ~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  394 (470)
                      |...|++++|.+.++++.+.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...|...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999998743345 46678888899999999999999999998864 4467889999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCce
Q 012126          395 ACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTR  447 (470)
Q Consensus       395 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  447 (470)
                      |...++++.+.. +.+...+..+...+...|++++|.++++++.+..  |+..
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--p~~~  243 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY--PGSL  243 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC--CCCH
Confidence            999999998764 3467788899999999999999999999998653  5443

>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=99.62  E-value=1.5e-12  Score=115.63  Aligned_cols=178  Identities=9%  Similarity=-0.041  Sum_probs=77.2

Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----cC
Q 012126          214 NGDISIAYTLFNKMFERGVMPDVESYRILMQGLCR----KSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR----KK  285 (470)
Q Consensus       214 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~  285 (470)
                      .+++++|...|++..+.+   +...+..+...|..    .+++++|++.|++..+.+   +...+..+...|..    .+
T Consensus        55 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~  128 (273)
T 1ouv_A           55 EKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTR  128 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCC
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCccc
Confidence            444444444444443332   33333344444444    444444444444444332   33334444444444    44


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHh----cCCh
Q 012126          286 KLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCR----EGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCD----QGMF  357 (470)
Q Consensus       286 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~  357 (470)
                      ++++|...|++..+.+   +...+..+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++
T Consensus       129 ~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~  202 (273)
T 1ouv_A          129 DFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNF  202 (273)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCH
T ss_pred             CHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccH
Confidence            4444444444444432   23333334444443    444444444444444432   23344444444444    4555


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCC
Q 012126          358 DVAKKYMQLMISKGFSPHFSVSHALIKGFCN----VGKVDEACGVLEELLKAG  406 (470)
Q Consensus       358 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~  406 (470)
                      ++|...+++..+.+   +...+..+..+|..    .+++++|.+.|++..+.|
T Consensus       203 ~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          203 KEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            55555555544432   13344444444444    455555555555554443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.61  E-value=4.9e-13  Score=114.82  Aligned_cols=202  Identities=10%  Similarity=-0.026  Sum_probs=108.8

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLN  279 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  279 (470)
                      +...+..+...+...|++++|.+.|+++.+.... +...+..+...+...|++++|.+.++++.+.... +..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIKPD-SAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-ChHHHHHHHH
Confidence            3445556666666666666666666666654322 4555666666666666666666666666554322 4455555566


Q ss_pred             HHHhc-CCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCCh
Q 012126          280 SLCRK-KKLREAYKLLCRMKVKGCNPD-IVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMF  357 (470)
Q Consensus       280 ~~~~~-~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  357 (470)
                      .+... |++++|...++++.+.+..|+ ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCH
Confidence            66666 666666666666555211222 3445555555555555555555555555432 12344455555555555555


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          358 DVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       358 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      ++|...++++.+.....+...+..+...+...|+.++|..+++.+.+
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            55555555555432113344444444555555555555555555543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.61  E-value=5.5e-13  Score=127.44  Aligned_cols=349  Identities=10%  Similarity=0.006  Sum_probs=170.7

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCc---hHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012126           63 CRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYF---SLIDDILITLKSEHYPVTPSLFTYLIKI  139 (470)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~li~~  139 (470)
                      ..+.......|++++|++.|+.+...++    ...+..+...+...|+.   ++|..+|++..+.    ++..+..|...
T Consensus         7 ~~la~~~~~~g~~~~A~~~~~~aa~~g~----~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~   78 (452)
T 3e4b_A            7 QRLANEALKRGDTVTAQQNYQQLAELGY----SEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRL   78 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTC----CTGGGTCC--------------------------------CHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHCCC----HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHH
Confidence            4566777788889999998888765432    22333444445556666   8888888877643    55566666665


Q ss_pred             HHHcC-----CchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCC--ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          140 YAESN-----LPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRN--YLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFC  212 (470)
Q Consensus       140 ~~~~g-----~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  212 (470)
                      +...+     ++++|+..|++..+.|...   .+..+-..+....+  .-..+.+.+......|   +...+..|...|.
T Consensus        79 ~~~~~~~~~~~~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~  152 (452)
T 3e4b_A           79 LAAKPGATEAEHHEAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYR  152 (452)
T ss_dssp             HHTC--CCHHHHHHHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHH
T ss_pred             HHhCCCCCCcCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHH
Confidence            55544     6678888888887765332   22222222222111  0133444444444433   2334455555555


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc----C
Q 012126          213 FNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKS---QVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRK----K  285 (470)
Q Consensus       213 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----~  285 (470)
                      ..+.++++......+.+.-...+...+..+...|...|   +.++|++.|++..+.|.. +...+..|..+|...    +
T Consensus       153 ~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~  231 (452)
T 3e4b_A          153 TQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTP  231 (452)
T ss_dssp             HHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSC
T ss_pred             cCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCC
Confidence            55544443333222222111112235555666666666   666666666666665533 343334455555433    4


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-H--HhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcC-----Ch
Q 012126          286 KLREAYKLLCRMKVKGCNPDIVHYNTVVLG-F--CREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQG-----MF  357 (470)
Q Consensus       286 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~--~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-----~~  357 (470)
                      +.++|...|++.. .|   +...+..+... |  ...+++++|+..|++..+.|   +...+..|...|. .|     ++
T Consensus       232 d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~  303 (452)
T 3e4b_A          232 DEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADA  303 (452)
T ss_dssp             CHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCH
T ss_pred             CHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCH
Confidence            6666666666655 32   34444444444 2  34566666666666666554   4445555555554 33     66


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCcHHH
Q 012126          358 DVAKKYMQLMISKGFSPHFSVSHALIKGFCN----VGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICA----GEEMEK  429 (470)
Q Consensus       358 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~  429 (470)
                      ++|..+|++.. .   .+...+..|...|..    ..++++|..+|++..+.|   +......|...|..    ..+.++
T Consensus       304 ~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~  376 (452)
T 3e4b_A          304 KAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLN  376 (452)
T ss_dssp             HHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHH
T ss_pred             HHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHH
Confidence            66666666655 2   244455555555544    236666666666666554   23334444444442    345666


Q ss_pred             HHHHHHHHHHcc
Q 012126          430 LGEVLNEIVKVE  441 (470)
Q Consensus       430 a~~~~~~m~~~~  441 (470)
                      |...++...+.|
T Consensus       377 A~~~~~~A~~~g  388 (452)
T 3e4b_A          377 AYVFSQLAKAQD  388 (452)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHHCC
Confidence            666666665554

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.60  E-value=7.5e-13  Score=113.65  Aligned_cols=209  Identities=12%  Similarity=0.030  Sum_probs=177.8

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012126          235 DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVL  314 (470)
Q Consensus       235 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  314 (470)
                      +...+..+...+...|++++|++.++++.+.... +...+..+..+|...|++++|.+.+++..+.. +.+...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            5677888899999999999999999999886543 67889999999999999999999999998763 346788899999


Q ss_pred             HHHhc-CCHhHHHHHHHhchhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 012126          315 GFCRE-GRAIDACKVLEDMPSNGCLPN-LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKV  392 (470)
Q Consensus       315 ~~~~~-~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  392 (470)
                      .+... |++++|...++++.+.+..|+ ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCH
Confidence            99999 999999999999988433343 5778888999999999999999999998863 44578899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCcee
Q 012126          393 DEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRI  448 (470)
Q Consensus       393 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  448 (470)
                      ++|...++++.+.....+...+..+...+...|+.+++..+++.+.+.  .|+...
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~  217 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEE  217 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHH
Confidence            999999999988643247778888888889999999999999999854  355443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.60  E-value=4.6e-14  Score=122.99  Aligned_cols=201  Identities=14%  Similarity=0.072  Sum_probs=104.6

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLN  279 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  279 (470)
                      ....|..+...+...|++++|..+|+++.+.... +...+..+...+...|++++|++.++++.+.... +..++..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELDSS-AATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc-chHHHHHHHH
Confidence            3445566666666677777777777766654332 5566666666666667777777766666655332 4555666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHH
Q 012126          280 SLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDV  359 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  359 (470)
                      .+...|++++|...++++.+.. +.+...+..+...+.+.|++++|...++++.+.. +.+...+..+...+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHH
Confidence            6666666666666666665542 2244555555566666666666666666655432 2234455555555555666666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          360 AKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       360 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      |...++++.+.. +.+..++..+..+|...|++++|.+.++++.+.
T Consensus       178 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          178 ALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            666665555542 233445555555555555555555555555553

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.60  E-value=4.3e-13  Score=124.36  Aligned_cols=230  Identities=10%  Similarity=0.077  Sum_probs=121.7

Q ss_pred             HHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCC-hhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 012126          130 PSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNY-LRPAFDLFKSAHKHGVLPNTKSYNIMM  208 (470)
Q Consensus       130 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li  208 (470)
                      ..+|..+..++...|++++|++.|++++.  ..|+.......+..++...|+ +++|+..|+++++.... +...|+.+.
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~--l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g  173 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIE--LNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHH--hCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHH
Confidence            34455555555556666666666665555  223332222222222223332 55555555555544332 555666666


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh-cCCH
Q 012126          209 RAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR-KKKL  287 (470)
Q Consensus       209 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~~~~  287 (470)
                      .++...|++++|+..|+++++.... +...|..+..++...|++++|+..++++++..+. +...|+.+..++.+ .|..
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcc
Confidence            6666666666666666666665443 5566666666666666666666666666665443 55566666666665 3443


Q ss_pred             HHH-----HHHHHHHHHcCCCCCHHHHHHHHHHHHhcC--CHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcC-----
Q 012126          288 REA-----YKLLCRMKVKGCNPDIVHYNTVVLGFCREG--RAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQG-----  355 (470)
Q Consensus       288 ~~a-----~~~~~~m~~~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-----  355 (470)
                      ++|     +..+++..... +-+...|+.+...+...|  ++++|++.+.++ +. ...+...+..+...|.+.|     
T Consensus       252 ~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhccccc
Confidence            444     35555555442 223445555555555555  455666655555 21 1223445555555555542     


Q ss_pred             ----ChHHHHHHHHHH
Q 012126          356 ----MFDVAKKYMQLM  367 (470)
Q Consensus       356 ----~~~~a~~~~~~~  367 (470)
                          ..++|.++++++
T Consensus       329 ~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          329 NKEDILNKALELCEIL  344 (382)
T ss_dssp             SHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHH
Confidence                135566666655

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.60  E-value=1.2e-13  Score=120.24  Aligned_cols=201  Identities=15%  Similarity=0.118  Sum_probs=130.7

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012126          235 DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVL  314 (470)
Q Consensus       235 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  314 (470)
                      ....|..+...+...|++++|...|+++.+.... +...+..+...+...|++++|...+++..+.. +.+...+..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            4556666777777778888888888777765433 56677777777777888888888887776653 335667777777


Q ss_pred             HHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHH
Q 012126          315 GFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDE  394 (470)
Q Consensus       315 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  394 (470)
                      .+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHH
Confidence            7778888888888887776653 2356667777777778888888888887777653 3456677777777778888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          395 ACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       395 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      |.+.++++.+.. +.+..+|..+..+|...|++++|.+.++++.+.
T Consensus       178 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          178 ALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            888887776653 235667777777778888888888888877753

>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=99.59  E-value=5.6e-13  Score=123.57  Aligned_cols=248  Identities=9%  Similarity=0.001  Sum_probs=199.0

Q ss_pred             HHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC-chhHHHHHHHHHhCCCccCHHHHHHHHH
Q 012126           95 NSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNL-PDRALKTFRSMLEFNCKPLPKQLNRILE  173 (470)
Q Consensus        95 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~~~~~p~~~~~~~ll~  173 (470)
                      ...|..+...+.+.|++++|...++.++... |.+..+|+.+..++...|+ +++|+..|++++..  .|+.......+.
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l--~P~~~~a~~~~g  173 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHH--CCCCHHHHHHHH
Confidence            4567788888889999999999999998876 6788999999999999997 99999999999884  465554444555


Q ss_pred             HHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH-cCCh
Q 012126          174 LLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCR-KSQV  252 (470)
Q Consensus       174 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~~~~  252 (470)
                      .++...|++++|+..|+++++.... +...|..+..++...|++++|+..|+++++.... +...|+.+..++.. .|..
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcc
Confidence            5555677899999999999987654 8899999999999999999999999999998655 78899999999999 6665


Q ss_pred             HHH-----HHHHHHHHhCCCCCCHhhHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-----
Q 012126          253 NRA-----VDLLEDMLNKGFVPDTLSYTTLLNSLCRKK--KLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREG-----  320 (470)
Q Consensus       253 ~~a-----~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-----  320 (470)
                      ++|     ++.+++.+..... +...|..+..++...|  ++++|.+.+.++ +. .+.+...+..+...|.+.|     
T Consensus       252 ~eA~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhccccc
Confidence            777     5888888887654 6788888888888888  689999999888 33 3446778888999998874     


Q ss_pred             ----CHhHHHHHHHhc-hhCCCCCC-HHHHHHHHHHHH
Q 012126          321 ----RAIDACKVLEDM-PSNGCLPN-LVSYRTLVGGLC  352 (470)
Q Consensus       321 ----~~~~a~~~~~~m-~~~~~~p~-~~~~~~li~~~~  352 (470)
                          ..++|+++++++ .+.  .|. ...|..+...+.
T Consensus       329 ~~~~~~~~A~~~~~~l~~~~--DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          329 NKEDILNKALELCEILAKEK--DTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHTT--CGGGHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHh--CchhHHHHHHHHHHHH
Confidence                358999999998 553  344 345555554443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.57  E-value=1.2e-13  Score=122.79  Aligned_cols=209  Identities=13%  Similarity=0.016  Sum_probs=119.1

Q ss_pred             ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHH
Q 012126          181 YLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLE  260 (470)
Q Consensus       181 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  260 (470)
                      ++++|...|+++.+... .+...|..+...|...|++++|.+.|++..+.... +..++..+..+|...|++++|+..++
T Consensus        58 ~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~  135 (275)
T 1xnf_A           58 LRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLL  135 (275)
T ss_dssp             CHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHH
Confidence            34444444444443322 24566666667777777777777777776665332 45666667777777777777777777


Q ss_pred             HHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCC-
Q 012126          261 DMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLP-  339 (470)
Q Consensus       261 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-  339 (470)
                      ++.+..  |+.......+..+...|++++|...+++..... +++...+ .++..+...++.++|+..+....+..... 
T Consensus       136 ~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~  211 (275)
T 1xnf_A          136 AFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLA  211 (275)
T ss_dssp             HHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHH
T ss_pred             HHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhccccccc
Confidence            766643  222233334444455677777777776665542 2233333 35555666666677777777665532110 


Q ss_pred             --CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 012126          340 --NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVL  399 (470)
Q Consensus       340 --~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  399 (470)
                        +...+..+...+...|++++|...++++.+..  |+.  +.....++...|++++|.+.+
T Consensus       212 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          212 EHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CTT--CHHHHHHHHHHHHHHHC----
T ss_pred             ccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--chh--HHHHHHHHHHHHHHHhhHHHH
Confidence              13566667777777777777777777777643  321  222344555667777766654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.57  E-value=6.8e-13  Score=117.75  Aligned_cols=200  Identities=11%  Similarity=0.041  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 012126          203 SYNIMMRAFCFNGDISIAYTLFNKMFERGVMP--DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNS  280 (470)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  280 (470)
                      .+..+...|...|++++|.+.+++..+.+..+  ...+|..+...+...|++++|++.|++..+.... +..++..+..+
T Consensus        39 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~  117 (272)
T 3u4t_A           39 IYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSY  117 (272)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHH
Confidence            34444444445555555555555444421111  1222444444555555555555555554443322 33444455555


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCC---h
Q 012126          281 LCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGM---F  357 (470)
Q Consensus       281 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~---~  357 (470)
                      |...|++++|...+++..+.. +.+...|..+...+...+++++|...|+++.+.. +.+...+..+...+...|+   +
T Consensus       118 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~  195 (272)
T 3u4t_A          118 FYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQ  195 (272)
T ss_dssp             HHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSS
T ss_pred             HHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhh
Confidence            555555555555555544431 2233344444412222335555555555554432 1123444444445544454   5


Q ss_pred             HHHHHHHHHHHHCC-CCCC------HHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          358 DVAKKYMQLMISKG-FSPH------FSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       358 ~~a~~~~~~~~~~~-~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      ++|...++++.+.. -.|+      ..+|..+...|...|++++|.+.|++.++.
T Consensus       196 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  250 (272)
T 3u4t_A          196 GLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILAL  250 (272)
T ss_dssp             CTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            55555555544421 0111      134555556666666666666666666554

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.52  E-value=3.9e-13  Score=127.06  Aligned_cols=276  Identities=11%  Similarity=0.012  Sum_probs=146.0

Q ss_pred             HHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 012126          132 LFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAF  211 (470)
Q Consensus       132 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  211 (470)
                      .+..+...+...|++++|+..|+++.+.+  |+....                               -...+..+...|
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~-------------------------------~~~~~~~lg~~~   96 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAG--TEDLRT-------------------------------LSAIYSQLGNAY   96 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHH-------------------------------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhc--ccChhH-------------------------------HHHHHHHHHHHH
Confidence            34445566667777777777777666532  221100                               012344444444


Q ss_pred             HhcCChhHHHHHHHHHHHC----C-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC----C-CCCCHhhHHHHHHHH
Q 012126          212 CFNGDISIAYTLFNKMFER----G-VMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK----G-FVPDTLSYTTLLNSL  281 (470)
Q Consensus       212 ~~~g~~~~a~~~~~~m~~~----~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~ll~~~  281 (470)
                      ...|++++|...|++..+.    + ......++..+...|...|++++|+..+++..+.    + ......++..+...|
T Consensus        97 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~  176 (411)
T 4a1s_A           97 FYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVY  176 (411)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHH
Confidence            4555555555555444322    0 0112234444445555555555555555544332    0 011223444555555


Q ss_pred             HhcCC-----------------HHHHHHHHHHHHHc----CC-CCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCC-
Q 012126          282 CRKKK-----------------LREAYKLLCRMKVK----GC-NPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCL-  338 (470)
Q Consensus       282 ~~~~~-----------------~~~a~~~~~~m~~~----~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-  338 (470)
                      ...|+                 +++|.+.+++..+.    +. ......+..+...|...|++++|+..+++..+.... 
T Consensus       177 ~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  256 (411)
T 4a1s_A          177 HAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREF  256 (411)
T ss_dssp             HHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhc
Confidence            55555                 55555555554321    10 111235555666666677777777666665442100 


Q ss_pred             CC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCC--CC---CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC---
Q 012126          339 PN----LVSYRTLVGGLCDQGMFDVAKKYMQLMISKG--FS---PHFSVSHALIKGFCNVGKVDEACGVLEELLKAG---  406 (470)
Q Consensus       339 p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---  406 (470)
                      ++    ...+..+...+...|++++|...+++..+..  ..   ....++..+...|...|++++|...+++.++..   
T Consensus       257 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  336 (411)
T 4a1s_A          257 GDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQEL  336 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHC
Confidence            11    2256666677777777777777777665421  00   113466667777777788888877777765421   


Q ss_pred             -C-CCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          407 -E-APHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       407 -~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                       . .....++..+...|...|++++|.+.+++.++.
T Consensus       337 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          337 GDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence             0 011336667777777888888888888777654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.51  E-value=4e-11  Score=108.52  Aligned_cols=217  Identities=12%  Similarity=0.036  Sum_probs=128.7

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-------HcCCh-------HHHHHHHHHHHh-CCCCCCHhhHHHHHHHHH
Q 012126          218 SIAYTLFNKMFERGVMPDVESYRILMQGLC-------RKSQV-------NRAVDLLEDMLN-KGFVPDTLSYTTLLNSLC  282 (470)
Q Consensus       218 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~-------~~~~~-------~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~  282 (470)
                      ++|..+|++.+..... +...|..++..+.       ..|++       ++|..+|++.++ .... +...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~p~-~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~-~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKK-NMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHH
Confidence            4555566665554322 4555555555443       23554       666666666665 2322 4456666666666


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCC-HH-HHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHH-hcCChHH
Q 012126          283 RKKKLREAYKLLCRMKVKGCNPD-IV-HYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLC-DQGMFDV  359 (470)
Q Consensus       283 ~~~~~~~a~~~~~~m~~~~~~~~-~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~-~~g~~~~  359 (470)
                      +.|++++|..+|++..+.  .|+ .. .|..++..+.+.|++++|..+|++..+.+ +.+...|........ ..|+.++
T Consensus       111 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             hcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHH
Confidence            667777777777766654  333 22 56666666666777777777777766543 123333333322211 2577777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC-CCC--CHHHHHHHHHHHHcCCcHHHHHHHHHH
Q 012126          360 AKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAG-EAP--HEDTWVMIVPQICAGEEMEKLGEVLNE  436 (470)
Q Consensus       360 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~  436 (470)
                      |..+|++.++.. +-+...|..++..+.+.|++++|..+|++.++.. +.|  ....|..++..+.+.|+.++|..++++
T Consensus       188 A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          188 AFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            777777766642 3355666777777777777777777777776642 233  345666667766677777777777777


Q ss_pred             HHHc
Q 012126          437 IVKV  440 (470)
Q Consensus       437 m~~~  440 (470)
                      +.+.
T Consensus       267 a~~~  270 (308)
T 2ond_A          267 RFTA  270 (308)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.51  E-value=5.4e-13  Score=126.10  Aligned_cols=273  Identities=14%  Similarity=0.026  Sum_probs=141.4

Q ss_pred             HHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCH----HHHHHHHHHHHHcCCchhHHHHHHHHHhC----CCccCHHHH
Q 012126           97 TYLILILKLGRAKYFSLIDDILITLKSEHYPVTP----SLFTYLIKIYAESNLPDRALKTFRSMLEF----NCKPLPKQL  168 (470)
Q Consensus        97 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~p~~~~~  168 (470)
                      .+..+...+...|++++|...++.+.+.. +.+.    .++..+...|...|++++|++.|++..+.    +..|.    
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~----  124 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLG----  124 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHH----
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchH----
Confidence            34445556667777777777777776653 3333    35666777777777777777777765541    10111    


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC----C-CCCCHHHHHHHH
Q 012126          169 NRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFER----G-VMPDVESYRILM  243 (470)
Q Consensus       169 ~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~-~~p~~~~~~~ll  243 (470)
                                                     ....+..+...|...|++++|...|++..+.    + ......++..+.
T Consensus       125 -------------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  173 (411)
T 4a1s_A          125 -------------------------------EAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLG  173 (411)
T ss_dssp             -------------------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             -------------------------------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHH
Confidence                                           1223333344444444444444444433321    0 001123344444


Q ss_pred             HHHHHcCC-----------------hHHHHHHHHHHHhC----CC-CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 012126          244 QGLCRKSQ-----------------VNRAVDLLEDMLNK----GF-VPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKG  301 (470)
Q Consensus       244 ~~~~~~~~-----------------~~~a~~~~~~~~~~----~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  301 (470)
                      ..|...|+                 +++|++.+++..+.    +. .....++..+...|...|++++|...+++..+..
T Consensus       174 ~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  253 (411)
T 4a1s_A          174 NVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIA  253 (411)
T ss_dssp             HHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence            44444444                 44444444443221    10 1112344555555555566666655555544321


Q ss_pred             CC-CC----HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCC-----CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-
Q 012126          302 CN-PD----IVHYNTVVLGFCREGRAIDACKVLEDMPSNGCL-----PNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK-  370 (470)
Q Consensus       302 ~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-----p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-  370 (470)
                      .. .+    ...+..+...|...|++++|...+++..+....     ....++..+...+...|++++|...+++..+. 
T Consensus       254 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  333 (411)
T 4a1s_A          254 REFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIA  333 (411)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            00 01    124555566666666666666666655432100     01345566666677777777777777766542 


Q ss_pred             ---CC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          371 ---GF-SPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       371 ---~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                         +. .....++..+...|...|++++|.+.+++..+.
T Consensus       334 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          334 QELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence               10 011336666777777788888888888777663

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.51  E-value=8e-13  Score=124.50  Aligned_cols=63  Identities=11%  Similarity=-0.044  Sum_probs=36.8

Q ss_pred             CHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCC----HHHHHHHHHHHHHcCCchhHHHHHHHHH
Q 012126           94 SNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVT----PSLFTYLIKIYAESNLPDRALKTFRSML  157 (470)
Q Consensus        94 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~  157 (470)
                      ....+......+...|++++|...++.+.... +.+    ..++..+...|...|++++|+..|++..
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   74 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDL   74 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            34445555556666666666666666665543 223    2345556666666666666666666544

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.51  E-value=1.1e-12  Score=125.37  Aligned_cols=317  Identities=15%  Similarity=0.047  Sum_probs=212.8

Q ss_pred             HHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCc---hhHHHHHHHHHhCCCccCHHHHHHHHHHHH
Q 012126          100 ILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLP---DRALKTFRSMLEFNCKPLPKQLNRILELLV  176 (470)
Q Consensus       100 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~  176 (470)
                      .+...+.+.|++++|.++|....+.+   ++..+..|...|...|+.   ++|++.|++..+.    +...+..+-..+.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            35667788899999999999998776   445566777778888888   8999999998764    3333333333243


Q ss_pred             hcC----CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChh---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 012126          177 THR----NYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDIS---IAYTLFNKMFERGVMPDVESYRILMQGLCRK  249 (470)
Q Consensus       177 ~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~---~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  249 (470)
                      ...    ++.++|...|++..+.|.. +  .+..|...|...+..+   ++.+.+....+.|   +...+..+...|...
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~-~--A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~  154 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEG-N--TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQ  154 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCS-S--CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHH
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCH-H--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcC
Confidence            333    3678999999999997743 2  6667777777666543   4556666665555   345667788888888


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc----CCH
Q 012126          250 SQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKK---KLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCRE----GRA  322 (470)
Q Consensus       250 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~----~~~  322 (470)
                      +.++++......+.+.-...+...+..|..+|.+.|   +.++|.+.|++..+.| .++...+..+...|...    +++
T Consensus       155 ~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~  233 (452)
T 3e4b_A          155 GTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDE  233 (452)
T ss_dssp             TCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCH
T ss_pred             CCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCH
Confidence            865554444333322212223448888999999999   9999999999999887 44555556677777554    799


Q ss_pred             hHHHHHHHhchhCCCCCCHHHHHHHHHH-H--HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-----CHHH
Q 012126          323 IDACKVLEDMPSNGCLPNLVSYRTLVGG-L--CDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVG-----KVDE  394 (470)
Q Consensus       323 ~~a~~~~~~m~~~~~~p~~~~~~~li~~-~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-----~~~~  394 (470)
                      ++|+..|+... .|   +...+..+... +  ...+++++|..+|++..+.|   +...+..+...|. .|     ++++
T Consensus       234 ~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~  305 (452)
T 3e4b_A          234 KTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKA  305 (452)
T ss_dssp             HHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHH
T ss_pred             HHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHH
Confidence            99999999987 43   55566666665 3  46899999999999999876   6677777887777 55     9999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCcHHHHHHHHHHHHHccc
Q 012126          395 ACGVLEELLKAGEAPHEDTWVMIVPQICA----GEEMEKLGEVLNEIVKVEI  442 (470)
Q Consensus       395 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  442 (470)
                      |.+.|++.. .   -+...+..|...|..    ..++++|.+.|++..+.|.
T Consensus       306 A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          306 AEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             HHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence            999999987 4   377888888887776    4499999999999987653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.50  E-value=3.6e-12  Score=119.30  Aligned_cols=231  Identities=11%  Similarity=-0.047  Sum_probs=173.5

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC------CCHhhHH
Q 012126          207 MMRAFCFNGDISIAYTLFNKMFER----GVMP-DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV------PDTLSYT  275 (470)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~  275 (470)
                      ....+...|++++|...|++..+.    +-.+ ...++..+...|...|++++|+..+.+..+....      ....+++
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            556778899999999999998764    1111 3467888889999999999999999887753111      1235778


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHhHHHHHHHhchhC----CC-CCCHHHHH
Q 012126          276 TLLNSLCRKKKLREAYKLLCRMKVK----GCNP-DIVHYNTVVLGFCREGRAIDACKVLEDMPSN----GC-LPNLVSYR  345 (470)
Q Consensus       276 ~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~p~~~~~~  345 (470)
                      .+..+|...|++++|...+++..+.    +..+ ...++..+...|...|++++|+..+++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            8888999999999999999887653    1111 1247888899999999999999999987762    22 23456788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHccCC---HHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 012126          346 TLVGGLCDQGMFDVAKKYMQLMISK----GFSPHFSVSHALIKGFCNVGK---VDEACGVLEELLKAGEAPH-EDTWVMI  417 (470)
Q Consensus       346 ~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~p~-~~~~~~l  417 (470)
                      .+...+...|++++|...+++..+.    +-+.....+..+...|...|+   +++|..++++.   +..++ ...+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            8899999999999999999988763    111122345677788899999   77777777765   22222 3467788


Q ss_pred             HHHHHcCCcHHHHHHHHHHHHHc
Q 012126          418 VPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       418 ~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      ...|...|++++|.+.+++..+.
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHH
Confidence            89999999999999999999764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.49  E-value=1.1e-12  Score=123.43  Aligned_cols=275  Identities=13%  Similarity=0.028  Sum_probs=151.1

Q ss_pred             CCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCH----HHHHHHHHHHHhcCCChhhHHHHHHHHHHC----CCCC
Q 012126          128 VTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLP----KQLNRILELLVTHRNYLRPAFDLFKSAHKH----GVLP  199 (470)
Q Consensus       128 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~----~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~----~~~~  199 (470)
                      .....+......+...|++++|+..|++..+.+  |+.    ......+..++...|++++|...+++....    +..|
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            445566677788888888888888888887743  321    112223333444556677777777765532    1111


Q ss_pred             -CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHHcCC--------------------hH
Q 012126          200 -NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVM-PD----VESYRILMQGLCRKSQ--------------------VN  253 (470)
Q Consensus       200 -~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p~----~~~~~~ll~~~~~~~~--------------------~~  253 (470)
                       ...++..+...|...|++++|...+++..+.... .+    ..++..+...|...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             2345666667777777777777777766543100 01    3356666666777777                    66


Q ss_pred             HHHHHHHHHHhC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCCHh
Q 012126          254 RAVDLLEDMLNK----GFVP-DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGC-NPD----IVHYNTVVLGFCREGRAI  323 (470)
Q Consensus       254 ~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~~~~~  323 (470)
                      +|++.+.+..+.    +..+ ...++..+...|...|++++|...+++..+... .++    ..++..+...|...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            666666665432    1111 123455566666666666666666666543210 011    124555556666666666


Q ss_pred             HHHHHHHhchhCCCC-CC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHccCCHH
Q 012126          324 DACKVLEDMPSNGCL-PN----LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF-SPH----FSVSHALIKGFCNVGKVD  393 (470)
Q Consensus       324 ~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g~~~  393 (470)
                      +|...+++..+.... .+    ..++..+...+...|++++|...+++..+... ..+    ..++..+...|...|+++
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  324 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHD  324 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            666666655432100 11    33455555566666666666666665554210 011    334555555566666666


Q ss_pred             HHHHHHHHHHH
Q 012126          394 EACGVLEELLK  404 (470)
Q Consensus       394 ~a~~~~~~~~~  404 (470)
                      +|.+.+++..+
T Consensus       325 ~A~~~~~~al~  335 (406)
T 3sf4_A          325 QAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666666555

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.47  E-value=1.3e-12  Score=119.39  Aligned_cols=239  Identities=13%  Similarity=0.041  Sum_probs=149.6

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-CC----H
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFER----GVM-PDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV-PD----T  271 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~  271 (470)
                      ..+..+...+...|++++|.+.+++..+.    +.. ....++..+...+...|++++|...+++..+.... .+    .
T Consensus        44 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  123 (338)
T 3ro2_A           44 AIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEA  123 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHH
Confidence            44555566666666666666666654332    111 12345555666666667777776666665432110 11    2


Q ss_pred             hhHHHHHHHHHhcCC--------------------HHHHHHHHHHHHHc----CCC-CCHHHHHHHHHHHHhcCCHhHHH
Q 012126          272 LSYTTLLNSLCRKKK--------------------LREAYKLLCRMKVK----GCN-PDIVHYNTVVLGFCREGRAIDAC  326 (470)
Q Consensus       272 ~~~~~ll~~~~~~~~--------------------~~~a~~~~~~m~~~----~~~-~~~~~~~~li~~~~~~~~~~~a~  326 (470)
                      .++..+...|...|+                    +++|...+++....    +.. .....+..+...+...|++++|.
T Consensus       124 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  203 (338)
T 3ro2_A          124 RALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAV  203 (338)
T ss_dssp             HHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence            355566666666666                    77777766665332    111 11345666777778888888888


Q ss_pred             HHHHhchhCCC-CCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHccCCHHHHH
Q 012126          327 KVLEDMPSNGC-LPN----LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF-SPH----FSVSHALIKGFCNVGKVDEAC  396 (470)
Q Consensus       327 ~~~~~m~~~~~-~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g~~~~a~  396 (470)
                      ..+++..+... .++    ..++..+...+...|++++|...+++..+... ..+    ..++..+...|...|++++|.
T Consensus       204 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  283 (338)
T 3ro2_A          204 IAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAI  283 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHH
Confidence            88877654210 011    23667777788888888888888887765310 111    456777888888999999999


Q ss_pred             HHHHHHHHC----CC-CCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          397 GVLEELLKA----GE-APHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       397 ~~~~~~~~~----~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      ..+++..+.    +. .....++..+...|.+.|++++|.+.++++.+.
T Consensus       284 ~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          284 DYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            998887653    11 011346778888889999999999999998864

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.47  E-value=1.6e-12  Score=118.76  Aligned_cols=276  Identities=14%  Similarity=0.045  Sum_probs=153.0

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHhhCCCCCC----HHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHH
Q 012126           98 YLILILKLGRAKYFSLIDDILITLKSEHYPVT----PSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILE  173 (470)
Q Consensus        98 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~  173 (470)
                      +......+...|++++|...++.+.+.. +.+    ..++..+...|...|++++|++.+++......            
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~------------   74 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLAR------------   74 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH------------
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhh------------
Confidence            3344555666677777777777666553 223    24556666677777777777777666543100            


Q ss_pred             HHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHH
Q 012126          174 LLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVM-PD----VESYRILMQGLCR  248 (470)
Q Consensus       174 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p~----~~~~~~ll~~~~~  248 (470)
                          ..++               .......+..+...+...|++++|...+++..+.... .+    ..++..+...+..
T Consensus        75 ----~~~~---------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~  135 (338)
T 3ro2_A           75 ----TIGD---------------QLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHA  135 (338)
T ss_dssp             ----HHTC---------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             ----cccc---------------cHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHH
Confidence                0000               0001233444555555555555555555554332100 01    2244555555555


Q ss_pred             cCC--------------------hHHHHHHHHHHHhC----CC-CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---
Q 012126          249 KSQ--------------------VNRAVDLLEDMLNK----GF-VPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK---  300 (470)
Q Consensus       249 ~~~--------------------~~~a~~~~~~~~~~----~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---  300 (470)
                      .|+                    +++|.+.+++....    +. .....++..+...+...|++++|...+++..+.   
T Consensus       136 ~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~  215 (338)
T 3ro2_A          136 KGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKE  215 (338)
T ss_dssp             HHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             cCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            555                    56665555554321    11 111335555666666667777777666665432   


Q ss_pred             -CC-CCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCC-CC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC---
Q 012126          301 -GC-NPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCL-PN----LVSYRTLVGGLCDQGMFDVAKKYMQLMISK---  370 (470)
Q Consensus       301 -~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---  370 (470)
                       +. .....++..+...+...|++++|...+++..+.... .+    ..++..+...+...|++++|...+++..+.   
T Consensus       216 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  295 (338)
T 3ro2_A          216 FGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQE  295 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHh
Confidence             10 001235666667777777777777777765432100 11    445666777777888888888888776653   


Q ss_pred             -CCC-CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          371 -GFS-PHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       371 -~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                       +.. ....++..+...|...|++++|...+++..+.
T Consensus       296 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          296 LKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             cCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence             111 11346667778888888888888888887764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.46  E-value=5.9e-11  Score=107.39  Aligned_cols=219  Identities=10%  Similarity=0.031  Sum_probs=151.3

Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHH-------hcCCh-------hHHHHHHHHHHHC-CCCCCHHHHHHHHHHHH
Q 012126          183 RPAFDLFKSAHKHGVLPNTKSYNIMMRAFC-------FNGDI-------SIAYTLFNKMFER-GVMPDVESYRILMQGLC  247 (470)
Q Consensus       183 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-------~~g~~-------~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~  247 (470)
                      ++|..+|++...... -+...|..++..+.       ..|++       ++|..+|++.++. .. -+...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~p-~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p-~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVLG-HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLK-KNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHH
Confidence            455666666665432 25666666666554       34665       7888888887763 32 25567777888888


Q ss_pred             HcCChHHHHHHHHHHHhCCCCCCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-hcCCHhHH
Q 012126          248 RKSQVNRAVDLLEDMLNKGFVPDTL-SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFC-REGRAIDA  325 (470)
Q Consensus       248 ~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~-~~~~~~~a  325 (470)
                      ..|++++|.++|+++.+.... +.. +|..+...+.+.|++++|..+|++..+.. +.+...|........ ..|++++|
T Consensus       111 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             hcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHH
Confidence            888888888888888775332 232 67777888888888888888888887653 223344433333222 36888888


Q ss_pred             HHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCC--CHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 012126          326 CKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKG-FSP--HFSVSHALIKGFCNVGKVDEACGVLEEL  402 (470)
Q Consensus       326 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~  402 (470)
                      ..+|+...+.. +-+...|..++..+.+.|++++|..+|++.++.. +.|  ....|..++..+.+.|+.++|..+++++
T Consensus       189 ~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88888877642 2356777788888888888888888888888852 344  4667888888888888888888888888


Q ss_pred             HHCC
Q 012126          403 LKAG  406 (470)
Q Consensus       403 ~~~~  406 (470)
                      .+..
T Consensus       268 ~~~~  271 (308)
T 2ond_A          268 FTAF  271 (308)
T ss_dssp             HHHT
T ss_pred             HHHc
Confidence            7743

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.45  E-value=3.6e-12  Score=122.57  Aligned_cols=212  Identities=9%  Similarity=-0.036  Sum_probs=145.3

Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh-hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHH
Q 012126          182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDI-SIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLE  260 (470)
Q Consensus       182 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  260 (470)
                      ++++...+++...... .+...+..+...+...|++ ++|++.|++..+.... +...|..+..+|...|++++|++.|+
T Consensus        84 ~~~al~~l~~~~~~~~-~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQ-VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTCC-CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCc-hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            6677777776665432 3677778888888888888 8888888888776533 57778888888888888888888888


Q ss_pred             HHHhCCCCCCHhhHHHHHHHHHhc---------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc--------CCHh
Q 012126          261 DMLNKGFVPDTLSYTTLLNSLCRK---------KKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCRE--------GRAI  323 (470)
Q Consensus       261 ~~~~~~~~~~~~~~~~ll~~~~~~---------~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~--------~~~~  323 (470)
                      +..+..  |+...+..+..+|...         |++++|...+++..+.. +.+...|..+..+|...        |+++
T Consensus       162 ~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            887764  4567777777777777         77777777777777653 23466677777777766        6677


Q ss_pred             HHHHHHHhchhCCCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 012126          324 DACKVLEDMPSNGCL--PNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVL  399 (470)
Q Consensus       324 ~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  399 (470)
                      +|+..|++..+....  -+...|..+..+|...|++++|...|++..+.. +.+...+..+..++...|++++|.+.+
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            777777776664210  255666666666677777777777777666642 234455666666666666666666544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.45  E-value=2.7e-11  Score=100.55  Aligned_cols=162  Identities=11%  Similarity=0.009  Sum_probs=65.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHH
Q 012126          273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLC  352 (470)
Q Consensus       273 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  352 (470)
                      +|..+...|.+.|++++|+..|++..+.. +-+...+..+..+|.+.|++++|...+....... +-+...+..+...+.
T Consensus         7 iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   84 (184)
T 3vtx_A            7 IYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSANF   84 (184)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHHH
Confidence            33334444444444444444444433331 1123333334444444444444444444433321 112233333333444


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHH
Q 012126          353 DQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGE  432 (470)
Q Consensus       353 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  432 (470)
                      ..++++.|...+.+..+.. +.+...+..+..+|.+.|++++|.+.|++.++... .+..+|..+..+|.+.|++++|++
T Consensus        85 ~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~lg~~~~~~g~~~~A~~  162 (184)
T 3vtx_A           85 MIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKP-GFIRAYQSIGLAYEGKGLRDEAVK  162 (184)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcc-hhhhHHHHHHHHHHHCCCHHHHHH
Confidence            4444444444444444321 22333444444444444444444444444444321 133444444444444444444444


Q ss_pred             HHHHHH
Q 012126          433 VLNEIV  438 (470)
Q Consensus       433 ~~~~m~  438 (470)
                      .|++++
T Consensus       163 ~~~~al  168 (184)
T 3vtx_A          163 YFKKAL  168 (184)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444444

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.45  E-value=9.7e-12  Score=116.36  Aligned_cols=297  Identities=8%  Similarity=0.004  Sum_probs=194.9

Q ss_pred             HHccCCchHHHHHHHHHhhC--CCCCCHH--HHHHHHHH--HHHcCCchhHH-----------HHHHHHHhCCCccCH--
Q 012126          105 LGRAKYFSLIDDILITLKSE--HYPVTPS--LFTYLIKI--YAESNLPDRAL-----------KTFRSMLEFNCKPLP--  165 (470)
Q Consensus       105 ~~~~~~~~~a~~~~~~~~~~--~~~~~~~--~~~~li~~--~~~~g~~~~A~-----------~~~~~~~~~~~~p~~--  165 (470)
                      +.+.+++++|..+++++.+.  ....+..  .|-.++..  ....+..+.+.           +.++.+.......+.  
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~~~~~~~l  101 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQARLTGLL  101 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHTHHHHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcCCCchhHH
Confidence            45667777777777776543  1112332  22222222  11223333333           555555431111010  


Q ss_pred             -HHHHHHHHHHHhcCCChhhHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCC------C
Q 012126          166 -KQLNRILELLVTHRNYLRPAFDLFKSAHKH----GVLP-NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGV------M  233 (470)
Q Consensus       166 -~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~------~  233 (470)
                       ..+......+....|++++|...|++..+.    +..+ ...++..+...|...|++++|...+++..+...      .
T Consensus       102 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  181 (383)
T 3ulq_A          102 EYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNI  181 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchH
Confidence             112223445555677889999999888763    1111 346788888999999999999999988765311      1


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-CC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-C
Q 012126          234 PDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV-PD----TLSYTTLLNSLCRKKKLREAYKLLCRMKVK----GC-N  303 (470)
Q Consensus       234 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~-~  303 (470)
                      ....+++.+..+|...|++++|++.+++..+.... .+    ..++..+..+|...|++++|...+++..+.    +. +
T Consensus       182 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~  261 (383)
T 3ulq_A          182 RLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILP  261 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGG
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccch
Confidence            12457788889999999999999999887753111 11    247788889999999999999999988762    22 3


Q ss_pred             CCHHHHHHHHHHHHhcCCHhHHHHHHHhchhC----CCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCCCC-
Q 012126          304 PDIVHYNTVVLGFCREGRAIDACKVLEDMPSN----GCLPNLVSYRTLVGGLCDQGM---FDVAKKYMQLMISKGFSPH-  375 (470)
Q Consensus       304 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~-  375 (470)
                      ....++..+...|.+.|++++|...+++..+.    +-+.....+..+...+...|+   .++|..++++.   +..++ 
T Consensus       262 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~  338 (383)
T 3ulq_A          262 SLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADL  338 (383)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHH
Confidence            34567888899999999999999999887653    111112335667777888888   66666666655   22222 


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          376 FSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       376 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      ...+..+...|...|++++|.+.|++..+
T Consensus       339 ~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          339 EDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34677888999999999999999998865

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.44  E-value=2e-11  Score=101.27  Aligned_cols=166  Identities=13%  Similarity=0.061  Sum_probs=70.3

Q ss_pred             CHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 012126          129 TPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMM  208 (470)
Q Consensus       129 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  208 (470)
                      ++.+|..+...|...|++++|++.|++.++.  .|+.......+..++...|++++|...+......... +...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA--DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHH
Confidence            3344444444555555555555555444431  1222222222222222223333333333333332211 333444444


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHH
Q 012126          209 RAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLR  288 (470)
Q Consensus       209 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  288 (470)
                      ..+...++++.+...+.+....... +...+..+..++.+.|++++|++.|++..+..+. +..++..+..+|.+.|+++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHH
Confidence            4444445555555555444443222 3444444444455555555555555544443322 3444444444555555555


Q ss_pred             HHHHHHHHHHH
Q 012126          289 EAYKLLCRMKV  299 (470)
Q Consensus       289 ~a~~~~~~m~~  299 (470)
                      +|...|++..+
T Consensus       159 ~A~~~~~~al~  169 (184)
T 3vtx_A          159 EAVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            55555554444

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.44  E-value=1.1e-12  Score=118.78  Aligned_cols=240  Identities=13%  Similarity=0.059  Sum_probs=158.1

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC------C
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFER-------GVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK------G  266 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~  266 (470)
                      +..++..+...+...|++++|..+|+++.+.       .......++..+...|...|++++|+..++++.+.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4566777888888888888888888887763       22234566777888888888888888888887653      2


Q ss_pred             C-CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------CCCC-CHHHHHHHHHHHHhcCCHhHHHHHHHhchhC---
Q 012126          267 F-VPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK------GCNP-DIVHYNTVVLGFCREGRAIDACKVLEDMPSN---  335 (470)
Q Consensus       267 ~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---  335 (470)
                      . .....++..+...|...|++++|...+++..+.      +..| ....+..+...+...|++++|+.+++++.+.   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            1 223556777888888888888888888887654      1112 3456777888888889999988888887653   


Q ss_pred             ---CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-------CCCCC-------HHHHHHHHHHHHccCCHHHHHH
Q 012126          336 ---GCLP-NLVSYRTLVGGLCDQGMFDVAKKYMQLMISK-------GFSPH-------FSVSHALIKGFCNVGKVDEACG  397 (470)
Q Consensus       336 ---~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-------~~~~~-------~~~~~~li~~~~~~g~~~~a~~  397 (470)
                         +..| ...++..+...+...|++++|...++++.+.       ...+.       ...+..+...+...+.+.++..
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  265 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGG  265 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence               1122 2456777888888899999999998888753       11111       1122223333444555666666


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          398 VLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       398 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      .++...... ..+..+|..+..+|.+.|++++|.+++++.++.
T Consensus       266 ~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          266 WYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             --------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            666665432 224567888899999999999999999998754

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.43  E-value=8.7e-12  Score=119.89  Aligned_cols=217  Identities=9%  Similarity=-0.074  Sum_probs=161.5

Q ss_pred             chHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCc-hhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHH
Q 012126          111 FSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLP-DRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLF  189 (470)
Q Consensus       111 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~  189 (470)
                      ++++...++...... +.+...+..+...|...|++ ++|++.|++..+.  .|+.......+..++...|++++|...|
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKL--EPELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            556666666665543 45777788888888888888 8888888887763  3543333344444444666788888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhc---------CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc--------CCh
Q 012126          190 KSAHKHGVLPNTKSYNIMMRAFCFN---------GDISIAYTLFNKMFERGVMPDVESYRILMQGLCRK--------SQV  252 (470)
Q Consensus       190 ~~~~~~~~~~~~~~~~~li~~~~~~---------g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~--------~~~  252 (470)
                      ++..+..  |+...+..+...|...         |++++|.+.|++..+.... +...|..+..+|...        |++
T Consensus       161 ~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          161 SGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchH
Confidence            8888765  5667788888888888         8888888888888877543 677888888888888        888


Q ss_pred             HHHHHHHHHHHhCCCC--CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHH
Q 012126          253 NRAVDLLEDMLNKGFV--PDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLE  330 (470)
Q Consensus       253 ~~a~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  330 (470)
                      ++|++.|++..+....  -+...|..+..+|...|++++|.+.|++..+.. +.+...+..+...+...|++++|++.+.
T Consensus       238 ~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          238 QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            8888888888876431  267788888888888889999988888887763 3345677788888888888888888777


Q ss_pred             hchh
Q 012126          331 DMPS  334 (470)
Q Consensus       331 ~m~~  334 (470)
                      .+..
T Consensus       317 ~~~~  320 (474)
T 4abn_A          317 KTKP  320 (474)
T ss_dssp             TCCH
T ss_pred             cccC
Confidence            6643

>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=6.2e-11  Score=110.65  Aligned_cols=231  Identities=9%  Similarity=-0.057  Sum_probs=168.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCC-CC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC-----CC-CHhhH
Q 012126          206 IMMRAFCFNGDISIAYTLFNKMFERGV-MP----DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGF-----VP-DTLSY  274 (470)
Q Consensus       206 ~li~~~~~~g~~~~a~~~~~~m~~~~~-~p----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~-~~~~~  274 (470)
                      .....+...|++++|...|++..+... .+    ...++..+..+|...|+++.|+..+++..+...     .+ ...++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            345566788999999999998875411 11    245677888889999999999999888765311     11 24567


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHc----CCC-CCHHHHHHHHHHHHhcCCHhHHHHHHHhchh-----CCCCCCHHHH
Q 012126          275 TTLLNSLCRKKKLREAYKLLCRMKVK----GCN-PDIVHYNTVVLGFCREGRAIDACKVLEDMPS-----NGCLPNLVSY  344 (470)
Q Consensus       275 ~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~~  344 (470)
                      +.+..+|...|++++|.+.+++..+.    +.. ....++..+...|...|++++|+..+++..+     .. +....++
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~  264 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHH
Confidence            78888899999999999999887653    111 1235677888889999999999999998776     32 2236678


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCC----CCCCHHHHHHHHHHHHccCC---HHHHHHHHHHHHHCCCCCC-HHHHHH
Q 012126          345 RTLVGGLCDQGMFDVAKKYMQLMISKG----FSPHFSVSHALIKGFCNVGK---VDEACGVLEELLKAGEAPH-EDTWVM  416 (470)
Q Consensus       345 ~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~p~-~~~~~~  416 (470)
                      ..+...+.+.|++++|...+++..+..    -+.....+..+...|...|+   +.+|...+++.   +..++ ...+..
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~  341 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARS  341 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHH
Confidence            888899999999999999999988742    12223455666677778888   77777777662   22222 346677


Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          417 IVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       417 l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      +...|...|++++|.+.++++.+.
T Consensus       342 la~~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          342 AAAVFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH
Confidence            888999999999999999988753

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.37  E-value=2.9e-12  Score=115.95  Aligned_cols=246  Identities=13%  Similarity=0.079  Sum_probs=105.1

Q ss_pred             HHHHHHHHHHHHccCCchHHHHHHHHHhhC-------CCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhC------CC
Q 012126           95 NSTYLILILKLGRAKYFSLIDDILITLKSE-------HYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEF------NC  161 (470)
Q Consensus        95 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~  161 (470)
                      ..++..+...+...|++++|..+++.+.+.       ..+....++..+...|...|++++|+..|++....      +.
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            445555566666666666666666665542       12334455666666777777777777766665542      11


Q ss_pred             ccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHC------CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHHHC----
Q 012126          162 KPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKH------GVLP-NTKSYNIMMRAFCFNGDISIAYTLFNKMFER----  230 (470)
Q Consensus       162 ~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----  230 (470)
                      .|........+..++...|++++|...+++..+.      +..| ....+..+...+...|++++|.++|++..+.    
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence            1111111112222222333333333333333321      1011 2233444445555555555555555554432    


Q ss_pred             --CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC-------CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          231 --GVMP-DVESYRILMQGLCRKSQVNRAVDLLEDMLNKG-------FVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       231 --~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                        +..| ...++..+..+|...|++++|++.++++.+..       ..+.......                        
T Consensus       187 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~------------------------  242 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWM------------------------  242 (311)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHH------------------------
T ss_pred             hCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHH------------------------
Confidence              1011 12334444445555555555555554444310       0000000000                        


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          301 GCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       301 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                          ....+..+...+...+.+.++...+....... ..+..++..+..+|...|++++|..++++..+
T Consensus       243 ----~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          243 ----HAEEREECKGKQKDGTSFGEYGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ----HHHHHHHC-------CCSCCCC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ----HHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                11122233334445555556666666555421 22345566666777777777777777776654

>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=99.36  E-value=1.2e-08  Score=101.02  Aligned_cols=375  Identities=11%  Similarity=-0.013  Sum_probs=241.5

Q ss_pred             HHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCC---chHHHHHHHHHhhCC-CCCCHHHHHHHHH
Q 012126           63 CRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKY---FSLIDDILITLKSEH-YPVTPSLFTYLIK  138 (470)
Q Consensus        63 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~-~~~~~~~~~~li~  138 (470)
                      ..+.......++...+..+|+.+...  ++.+...|...+..-.+.++   ++.+..+|++..... .+|+...|..-+.
T Consensus        70 ~~yi~~~~~~~~~~~aR~vyEraL~~--fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~~Yl~  147 (679)
T 4e6h_A           70 VKLLKHHVSLKQWKQVYETFDKLHDR--FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWLSYIT  147 (679)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHHHHHH
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            34445556678888888999988765  35677788888888888888   999999999988764 1478888888777


Q ss_pred             HHHHcCCc--------hhHHHHHHHHHh-CCC-ccC-HHHHHHHHHHHHh--------cCCChhhHHHHHHHHHHCCCCC
Q 012126          139 IYAESNLP--------DRALKTFRSMLE-FNC-KPL-PKQLNRILELLVT--------HRNYLRPAFDLFKSAHKHGVLP  199 (470)
Q Consensus       139 ~~~~~g~~--------~~A~~~~~~~~~-~~~-~p~-~~~~~~ll~~~~~--------~~~~~~~a~~~~~~~~~~~~~~  199 (470)
                      ...+.++.        +...++|+..+. .|. .++ ...|...+.....        ..+.++.+..+|++.+......
T Consensus       148 f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~iP~~~  227 (679)
T 4e6h_A          148 YVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQPMDC  227 (679)
T ss_dssp             HHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTSCCSS
T ss_pred             HHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhCccHH
Confidence            66665554        234467776553 455 453 4556555544321        1122455666666666432111


Q ss_pred             CHHHHHH-------------------------------------------------------------------------
Q 012126          200 NTKSYNI-------------------------------------------------------------------------  206 (470)
Q Consensus       200 ~~~~~~~-------------------------------------------------------------------------  206 (470)
                      -..+|..                                                                         
T Consensus       228 ~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~  307 (679)
T 4e6h_A          228 LESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLE  307 (679)
T ss_dssp             HHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHH
Confidence            1122211                                                                         


Q ss_pred             HHHHHHhcC-------ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHH-HHHHHHHhCCCCCCHhhHHHHH
Q 012126          207 MMRAFCFNG-------DISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAV-DLLEDMLNKGFVPDTLSYTTLL  278 (470)
Q Consensus       207 li~~~~~~g-------~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~ll  278 (470)
                      .+..--..+       ..+.+..+|++.+... .-....|...+..+...|+.++|. ++|+...... +.+...|-..+
T Consensus       308 yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a  385 (679)
T 4e6h_A          308 WIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLS  385 (679)
T ss_dssp             HHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            111000000       0111223344443332 124455555556666778888886 8998888643 33666677788


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC---------CCCC------------HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCC
Q 012126          279 NSLCRKKKLREAYKLLCRMKVKG---------CNPD------------IVHYNTVVLGFCREGRAIDACKVLEDMPSNGC  337 (470)
Q Consensus       279 ~~~~~~~~~~~a~~~~~~m~~~~---------~~~~------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  337 (470)
                      ...-+.|+++.|..+|+.+.+..         ..|+            ...|...+....+.|..+.|..+|....+.-.
T Consensus       386 ~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~  465 (679)
T 4e6h_A          386 EQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK  465 (679)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC
Confidence            88888999999999999887641         0131            23577777777888999999999999887511


Q ss_pred             CCCHHHHHHHHHHHHhc-CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC--CHHHH
Q 012126          338 LPNLVSYRTLVGGLCDQ-GMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAP--HEDTW  414 (470)
Q Consensus       338 ~p~~~~~~~li~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p--~~~~~  414 (470)
                      ......|...+..-.+. ++.+.|.++|+..++. ++.+...+...+......|+.+.|..+|+..+.....+  ....|
T Consensus       466 ~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw  544 (679)
T 4e6h_A          466 LVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIF  544 (679)
T ss_dssp             GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHH
T ss_pred             CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            12233444333333333 4589999999998886 45567777888888888999999999999998764321  34578


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHHccc
Q 012126          415 VMIVPQICAGEEMEKLGEVLNEIVKVEI  442 (470)
Q Consensus       415 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~  442 (470)
                      ...+..-.+.|+.+.+.++.+++.+...
T Consensus       545 ~~~~~fE~~~G~~~~~~~v~~R~~~~~P  572 (679)
T 4e6h_A          545 QKVIFFESKVGSLNSVRTLEKRFFEKFP  572 (679)
T ss_dssp             HHHHHHHHHTCCSHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            8888888889999999999999987643

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.36  E-value=3.2e-10  Score=105.52  Aligned_cols=302  Identities=14%  Similarity=0.094  Sum_probs=196.3

Q ss_pred             HHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHH---HHHHHHHHHhcCCChhhHHHHHHHHHHCCCC-CCH----HH
Q 012126          132 LFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQ---LNRILELLVTHRNYLRPAFDLFKSAHKHGVL-PNT----KS  203 (470)
Q Consensus       132 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~---~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~----~~  203 (470)
                      +.......+...|++++|...+++........+...   ....+..++...|++++|...+++....... .+.    .+
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            344556667788999999999998877442222221   1223334444667789999999887753211 122    33


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC----CHh
Q 012126          204 YNIMMRAFCFNGDISIAYTLFNKMFER----GVM--P-DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVP----DTL  272 (470)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~--p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~  272 (470)
                      +..+...+...|++++|...+++..+.    +..  | ...++..+...+...|++++|...+++........    ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            566777888899999999998887653    221  2 23456667788888999999999998877643221    234


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHH-----HHHHHHHhcCCHhHHHHHHHhchhCCCCCC---HHH
Q 012126          273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPD-IVHYN-----TVVLGFCREGRAIDACKVLEDMPSNGCLPN---LVS  343 (470)
Q Consensus       273 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~-----~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~  343 (470)
                      ++..+...+...|++++|...+++.......++ ...+.     ..+..+...|++++|...+++.......+.   ...
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            567777888889999999999988765311111 11222     233447788999999999988876432211   224


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012126          344 YRTLVGGLCDQGMFDVAKKYMQLMISK----GFSPHF-SVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIV  418 (470)
Q Consensus       344 ~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  418 (470)
                      +..+...+...|++++|...++.....    |..++. .++..+..++...|+.++|...+++.....  +.    ...+
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~--~~----~g~~  329 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLA--NR----TGFI  329 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HH----HCCC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHh--cc----ccHH
Confidence            566777888889999999988887653    222222 255666777888899999999988887742  11    1122


Q ss_pred             HHHHcCCcHHHHHHHHHHHHHcc
Q 012126          419 PQICAGEEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       419 ~~~~~~g~~~~a~~~~~~m~~~~  441 (470)
                      ..+...|  +....+++.+...+
T Consensus       330 ~~~~~~g--~~~~~ll~~~~~~~  350 (373)
T 1hz4_A          330 SHFVIEG--EAMAQQLRQLIQLN  350 (373)
T ss_dssp             HHHHTTH--HHHHHHHHHHHHTT
T ss_pred             HHHHHcc--HHHHHHHHHHHhCC
Confidence            3445555  66777777776543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.35  E-value=3.8e-10  Score=105.25  Aligned_cols=233  Identities=11%  Similarity=0.016  Sum_probs=169.2

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHHHCCCC-C----CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCC-----CC-CHH
Q 012126          169 NRILELLVTHRNYLRPAFDLFKSAHKHGVL-P----NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGV-----MP-DVE  237 (470)
Q Consensus       169 ~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-----~p-~~~  237 (470)
                      ......+....|++++|...|++..+.... +    ...++..+...|...|+++.|...+++..+...     .+ ...
T Consensus       104 ~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  183 (378)
T 3q15_A          104 LFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQ  183 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHH
T ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHH
Confidence            334455555777899999999988754211 2    245678888999999999999999988765311     11 245


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhC----CCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCCHHH
Q 012126          238 SYRILMQGLCRKSQVNRAVDLLEDMLNK----GFV-PDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK----GCNPDIVH  308 (470)
Q Consensus       238 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~  308 (470)
                      +++.+..+|...|++++|++.|++..+.    +.. ....++..+..+|...|++++|...+++..+.    +.+....+
T Consensus       184 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  263 (378)
T 3q15_A          184 SLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKV  263 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHH
Confidence            7788889999999999999999887653    211 12356778888999999999999999988761    22233677


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHhchhCC----CCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCCCC-HHHHH
Q 012126          309 YNTVVLGFCREGRAIDACKVLEDMPSNG----CLPNLVSYRTLVGGLCDQGM---FDVAKKYMQLMISKGFSPH-FSVSH  380 (470)
Q Consensus       309 ~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~-~~~~~  380 (470)
                      +..+...|.+.|++++|...+++..+..    -+.....+..+...+...++   +.+|...+++   .+..++ ...+.
T Consensus       264 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~  340 (378)
T 3q15_A          264 LFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACAR  340 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHH
Confidence            8888899999999999999999876642    11223445556666677777   6677666665   222222 34667


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHH
Q 012126          381 ALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      .+...|...|++++|.+.|++..+
T Consensus       341 ~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          341 SAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            788999999999999999998765

>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=7.3e-09  Score=102.57  Aligned_cols=360  Identities=9%  Similarity=-0.016  Sum_probs=224.3

Q ss_pred             HHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC---chhHHHH
Q 012126           76 LLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNL---PDRALKT  152 (470)
Q Consensus        76 ~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~A~~~  152 (470)
                      ...+..|+.....+  +.+...|..++..+.+.+.++.+..+|+.+... +|.....|..-+..-.+.|.   ++.+.++
T Consensus        49 ~d~i~~lE~~l~~n--p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~l  125 (679)
T 4e6h_A           49 SDVIGKLNDMIEEQ--PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPV  125 (679)
T ss_dssp             SCHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHC--cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHH
Confidence            34444444444333  468999999999999999999999999999887 58899999999999888888   9999999


Q ss_pred             HHHHHhCC-CccCHHHHHHHHHHHHhcCCC-------hhhHHHHHHHHHH-CCC-CC-CHHHHHHHHHHHH---------
Q 012126          153 FRSMLEFN-CKPLPKQLNRILELLVTHRNY-------LRPAFDLFKSAHK-HGV-LP-NTKSYNIMMRAFC---------  212 (470)
Q Consensus       153 ~~~~~~~~-~~p~~~~~~~ll~~~~~~~~~-------~~~a~~~~~~~~~-~~~-~~-~~~~~~~li~~~~---------  212 (470)
                      |++.+... ..|+...|...+.......+.       .+.+.++|+..+. .|. .+ +...|...+....         
T Consensus       126 feRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~e  205 (679)
T 4e6h_A          126 LARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFE  205 (679)
T ss_dssp             HHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHH
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHH
Confidence            99988743 248888888877766543332       1345577777664 455 44 4578887776543         


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH-------------cCChHHHHHHH--------------------
Q 012126          213 FNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCR-------------KSQVNRAVDLL--------------------  259 (470)
Q Consensus       213 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-------------~~~~~~a~~~~--------------------  259 (470)
                      ..++++.+..+|++.+......-..+|......-..             ..+++.|...+                    
T Consensus       206 eq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~  285 (679)
T 4e6h_A          206 EQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQ  285 (679)
T ss_dssp             HHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTT
T ss_pred             HHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhcccccccc
Confidence            234567788888887753211112222211110000             01112222222                    


Q ss_pred             -----------------------------------------------HHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHH-
Q 012126          260 -----------------------------------------------EDMLNKGFVPDTLSYTTLLNSLCRKKKLREAY-  291 (470)
Q Consensus       260 -----------------------------------------------~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~-  291 (470)
                                                                     ++++..-.. +...|-..+..+...|+.++|. 
T Consensus       286 ~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~-~~~lW~~ya~~~~~~~~~~~a~r  364 (679)
T 4e6h_A          286 ATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCF-APEIWFNMANYQGEKNTDSTVIT  364 (679)
T ss_dssp             CCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHSCCTTHHH
T ss_pred             chhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHhcCcHHHHHH
Confidence                                                           222221111 2223333333444566777775 


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCC---------CCCC------------HHHHHHHHHH
Q 012126          292 KLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNG---------CLPN------------LVSYRTLVGG  350 (470)
Q Consensus       292 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---------~~p~------------~~~~~~li~~  350 (470)
                      .+|++.... ++.+...|-..+....+.|++++|.++|+.+.+..         -.|+            ...|...+..
T Consensus       365 ~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~  443 (679)
T 4e6h_A          365 KYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNT  443 (679)
T ss_dssp             HHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHH
Confidence            788777664 33455556667777778888888888888776531         0132            2356666676


Q ss_pred             HHhcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHcc-CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHH
Q 012126          351 LCDQGMFDVAKKYMQLMISK-GFSPHFSVSHALIKGFCNV-GKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEME  428 (470)
Q Consensus       351 ~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  428 (470)
                      ..+.|..+.|.++|..+++. +. ....+|...+..-.+. ++.+.|.++|+..++. ..-+...|...+......|+.+
T Consensus       444 erR~~~l~~AR~vf~~A~~~~~~-~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~  521 (679)
T 4e6h_A          444 MKRIQGLAASRKIFGKCRRLKKL-VTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEES  521 (679)
T ss_dssp             HHHHHCHHHHHHHHHHHHHTGGG-SCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHH
Confidence            67778888888888888775 21 1223333333323333 4578888888887775 3346666777777777788888


Q ss_pred             HHHHHHHHHHHccc
Q 012126          429 KLGEVLNEIVKVEI  442 (470)
Q Consensus       429 ~a~~~~~~m~~~~~  442 (470)
                      .|..+|+..++...
T Consensus       522 ~AR~lferal~~~~  535 (679)
T 4e6h_A          522 QVKSLFESSIDKIS  535 (679)
T ss_dssp             HHHHHHHHHTTTSS
T ss_pred             HHHHHHHHHHHhcC
Confidence            88888888876543

>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=99.33  E-value=1.3e-10  Score=96.10  Aligned_cols=164  Identities=15%  Similarity=0.084  Sum_probs=105.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHH
Q 012126          273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLC  352 (470)
Q Consensus       273 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  352 (470)
                      .+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            34444555555566666666665554432 2244555556666666666666666666655542 234556666666677


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHH
Q 012126          353 DQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGE  432 (470)
Q Consensus       353 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  432 (470)
                      ..|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+
T Consensus        88 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            7777777777777766652 3456667777777777888888888887776653 2356677777788888888888888


Q ss_pred             HHHHHHHc
Q 012126          433 VLNEIVKV  440 (470)
Q Consensus       433 ~~~~m~~~  440 (470)
                      .++++.+.
T Consensus       166 ~~~~~~~~  173 (186)
T 3as5_A          166 HFKKANEL  173 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHc
Confidence            88887754

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.32  E-value=1.5e-09  Score=101.04  Aligned_cols=301  Identities=11%  Similarity=-0.020  Sum_probs=201.2

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHH----HHHHHHHHHHHcCCchhHHHHHHHHHhCCC-ccCH---HHHH
Q 012126           98 YLILILKLGRAKYFSLIDDILITLKSEHYPVTPS----LFTYLIKIYAESNLPDRALKTFRSMLEFNC-KPLP---KQLN  169 (470)
Q Consensus        98 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~p~~---~~~~  169 (470)
                      .......+...|++++|...++......-..+..    +++.+...+...|++++|.+.+++...... ..+.   ....
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            4444556677899999999999887664222222    456677888889999999999988765211 1122   1123


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC----CHHH
Q 012126          170 RILELLVTHRNYLRPAFDLFKSAHKH----GVL--P-NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMP----DVES  238 (470)
Q Consensus       170 ~ll~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p----~~~~  238 (470)
                      ..+..+....|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++..+.....    ...+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            33445555778899999999988752    221  2 23456677888899999999999999887653221    2356


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC--HhhHH----HHHHHHHhcCCHHHHHHHHHHHHHcCCCC---CHHHH
Q 012126          239 YRILMQGLCRKSQVNRAVDLLEDMLNKGFVPD--TLSYT----TLLNSLCRKKKLREAYKLLCRMKVKGCNP---DIVHY  309 (470)
Q Consensus       239 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~----~ll~~~~~~~~~~~a~~~~~~m~~~~~~~---~~~~~  309 (470)
                      +..+...+...|++++|...+++.......++  .....    ..+..+...|+.++|...+++.......+   ....+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            77788889999999999999998865321111  11111    23344778999999999998887643211   12345


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHhchhC----CCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          310 NTVVLGFCREGRAIDACKVLEDMPSN----GCLPNL-VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIK  384 (470)
Q Consensus       310 ~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  384 (470)
                      ..+...+...|++++|...++.....    |..++. ..+..+..++...|+.++|...+++.....  +.    ...+.
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~--~~----~g~~~  330 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLA--NR----TGFIS  330 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HH----HCCCH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHh--cc----ccHHH
Confidence            67778889999999999999887543    221222 256666778889999999999999987742  10    11223


Q ss_pred             HHHccCCHHHHHHHHHHHHHCC
Q 012126          385 GFCNVGKVDEACGVLEELLKAG  406 (470)
Q Consensus       385 ~~~~~g~~~~a~~~~~~~~~~~  406 (470)
                      .+...|  +....+++.+....
T Consensus       331 ~~~~~g--~~~~~ll~~~~~~~  350 (373)
T 1hz4_A          331 HFVIEG--EAMAQQLRQLIQLN  350 (373)
T ss_dssp             HHHTTH--HHHHHHHHHHHHTT
T ss_pred             HHHHcc--HHHHHHHHHHHhCC
Confidence            344445  56667777776643

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.31  E-value=3.5e-10  Score=93.48  Aligned_cols=163  Identities=17%  Similarity=0.116  Sum_probs=90.2

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 012126          238 SYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFC  317 (470)
Q Consensus       238 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  317 (470)
                      .+..+...+...|++++|++.++++.+.... +..++..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDADAF-DVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTTSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            3344444555555555555555554443222 34445555555555555555555555554442 223445555555556


Q ss_pred             hcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 012126          318 REGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACG  397 (470)
Q Consensus       318 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  397 (470)
                      ..|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+
T Consensus        88 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            6666666666666555432 2344555556666666666666666666666542 3345566666666666667777766


Q ss_pred             HHHHHHH
Q 012126          398 VLEELLK  404 (470)
Q Consensus       398 ~~~~~~~  404 (470)
                      .+++..+
T Consensus       166 ~~~~~~~  172 (186)
T 3as5_A          166 HFKKANE  172 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666654

>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=99.27  E-value=1.5e-10  Score=115.85  Aligned_cols=164  Identities=10%  Similarity=0.022  Sum_probs=87.9

Q ss_pred             CHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHH
Q 012126           94 SNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILE  173 (470)
Q Consensus        94 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~  173 (470)
                      +...|+.+...+.+.|++++|++.|++..+.. |.+..++..+..+|.+.|++++|++.|++.++.  .|+         
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~---------   75 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPT---------   75 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT---------
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC---------
Confidence            34455556666666666666666666655543 445555555666666666666666666555542  233         


Q ss_pred             HHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChH
Q 012126          174 LLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVN  253 (470)
Q Consensus       174 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  253 (470)
                                                +...|+.+..+|...|++++|++.|++.++.... +...|..+..+|.+.|+++
T Consensus        76 --------------------------~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~  128 (723)
T 4gyw_A           76 --------------------------FADAYSNMGNTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIP  128 (723)
T ss_dssp             --------------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             --------------------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHH
Confidence                                      3445555555555555555555555555544322 4455555555555555555


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 012126          254 RAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRM  297 (470)
Q Consensus       254 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m  297 (470)
                      +|++.|++.++.... +...+..+..+|...|++++|.+.+++.
T Consensus       129 eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~~~A~~~~~ka  171 (723)
T 4gyw_A          129 EAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDWTDYDERMKKL  171 (723)
T ss_dssp             HHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccHHHHHHHHHHH
Confidence            555555555554332 3445555555555555555555555444

>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=99.25  E-value=2.6e-09  Score=91.82  Aligned_cols=205  Identities=10%  Similarity=-0.014  Sum_probs=151.3

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 012126          199 PNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLL  278 (470)
Q Consensus       199 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  278 (470)
                      .|...+......+...|++++|.+.|++..+....++...+..+..++...|++++|++.+++..+.... +..++..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            3567888888888999999999999999888765467777777888899999999999999998887554 667888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCC---HHHHHHHH
Q 012126          279 NSLCRKKKLREAYKLLCRMKVKGCNPDI-------VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN---LVSYRTLV  348 (470)
Q Consensus       279 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~-------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~li  348 (470)
                      .+|...|++++|...+++..+.. +.+.       ..|..+...+...|++++|+..|++..+.  .|+   ...+..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            89999999999999999988763 2234       45777778888999999999999998875  454   45666666


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 012126          349 GGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPH-EDTWVMI  417 (470)
Q Consensus       349 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l  417 (470)
                      .++...     +..+++++...+ ..+...|....  ....+.+++|...|++..+..  |+ ..+...+
T Consensus       161 ~~~~~~-----~~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~--p~~~~~~~~l  220 (228)
T 4i17_A          161 VLFYNN-----GADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLS--PNRTEIKQMQ  220 (228)
T ss_dssp             HHHHHH-----HHHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             HHHHHH-----HHHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcC--CCCHHHHHHH
Confidence            666544     344455555543 23444454444  334567899999999998854  44 4444443

>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=99.24  E-value=5.6e-10  Score=111.79  Aligned_cols=153  Identities=10%  Similarity=-0.011  Sum_probs=117.4

Q ss_pred             cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVD  257 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  257 (470)
                      ..|++++|++.|++.++... -+...|+.+..+|.+.|++++|++.|++.++.... +...|..+..+|...|++++|++
T Consensus        21 ~~G~~~eAi~~~~kAl~l~P-~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~~l~~~g~~~~A~~   98 (723)
T 4gyw_A           21 EQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGNTLKEMQDVQGALQ   98 (723)
T ss_dssp             HTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHH
Confidence            33334444444444443322 25677888888899999999999999988887544 67888889999999999999999


Q ss_pred             HHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          258 LLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       258 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      .|++..+.... +..++..+..+|.+.|++++|++.|++..+.. +-+...|..+..+|...|++++|.+.+++..+
T Consensus        99 ~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A           99 CYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHHHHHHHHHHH
Confidence            99988887544 67788888999999999999999999888763 23567888888899999999888888877654

>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=99.23  E-value=1.1e-10  Score=103.81  Aligned_cols=228  Identities=13%  Similarity=-0.008  Sum_probs=158.7

Q ss_pred             HhcCChhHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC------CC-CCCHhhHHHH
Q 012126          212 CFNGDISIAYTLFNKMFER-------GVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK------GF-VPDTLSYTTL  277 (470)
Q Consensus       212 ~~~g~~~~a~~~~~~m~~~-------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l  277 (470)
                      ...|++++|..+|++..+.       ..+....++..+...|...|++++|+..++++.+.      +- .....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            4568888888888776652       22234677888999999999999999999998764      22 2245678889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc------C-CCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhC------CCCC-CHHH
Q 012126          278 LNSLCRKKKLREAYKLLCRMKVK------G-CNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSN------GCLP-NLVS  343 (470)
Q Consensus       278 l~~~~~~~~~~~a~~~~~~m~~~------~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~~  343 (470)
                      ..+|...|++++|...+++..+.      . .+.....+..+...|...|++++|...++++.+.      +..| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999998764      1 1223567888899999999999999999998764      1122 3567


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHC-------CCCCC-HHHHHHHHHHHHccCC------HHHHHHHHHHHHHCCCCC
Q 012126          344 YRTLVGGLCDQGMFDVAKKYMQLMISK-------GFSPH-FSVSHALIKGFCNVGK------VDEACGVLEELLKAGEAP  409 (470)
Q Consensus       344 ~~~li~~~~~~g~~~~a~~~~~~~~~~-------~~~~~-~~~~~~li~~~~~~g~------~~~a~~~~~~~~~~~~~p  409 (470)
                      +..+...+...|++++|...++++.+.       ...+. ...+..+...+...+.      +..+...++.... ....
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHH
Confidence            888899999999999999999998763       11222 2233333333333333      2222222222211 1112


Q ss_pred             CHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          410 HEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       410 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      ...++..+...|...|++++|.+++++.++.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3447888999999999999999999998753

>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=99.21  E-value=2.8e-09  Score=91.58  Aligned_cols=199  Identities=13%  Similarity=0.027  Sum_probs=153.4

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012126          235 DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVL  314 (470)
Q Consensus       235 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  314 (470)
                      |...+......+...|++++|++.|++..+....++...+..+..++...|++++|...+++..+.. +.+...|..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHH
Confidence            5678888899999999999999999999987654577777779999999999999999999998863 225677888999


Q ss_pred             HHHhcCCHhHHHHHHHhchhCCCCCCH-------HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC---HHHHHHHHH
Q 012126          315 GFCREGRAIDACKVLEDMPSNGCLPNL-------VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH---FSVSHALIK  384 (470)
Q Consensus       315 ~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~  384 (470)
                      .|...|++++|+..+++..+.. +.+.       ..|..+...+...|++++|...++++++.  .|+   ...+..+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            9999999999999999988753 1234       45777788888999999999999999885  444   456777777


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCce
Q 012126          385 GFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTR  447 (470)
Q Consensus       385 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  447 (470)
                      +|...|     ..+++++...+. .+...|....  ....+.+++|...+++.++.  .|+..
T Consensus       162 ~~~~~~-----~~~~~~a~~~~~-~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~  214 (228)
T 4i17_A          162 LFYNNG-----ADVLRKATPLAS-SNKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNRT  214 (228)
T ss_dssp             HHHHHH-----HHHHHHHGGGTT-TCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHHH-----HHHHHHHHhccc-CCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCH
Confidence            775544     445566655432 2444554443  34567789999999999965  45543

>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=99.18  E-value=3.8e-10  Score=100.18  Aligned_cols=233  Identities=13%  Similarity=0.047  Sum_probs=121.0

Q ss_pred             CCChHHHHHHHHHhhc------CCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhC------C-CCCCHHHHHHHHH
Q 012126           72 QSDPLLAKEIFDYASR------QPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSE------H-YPVTPSLFTYLIK  138 (470)
Q Consensus        72 ~~~~~~a~~~~~~~~~------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~li~  138 (470)
                      .++++.|+..|+.+..      ..+.+....++..+...+...|++++|...++.....      + .+....++..+..
T Consensus        14 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~   93 (283)
T 3edt_B           14 LVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAV   93 (283)
T ss_dssp             CSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHH
Confidence            4555555555554432      1111223445666666666677777777666666543      1 1223445566666


Q ss_pred             HHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChh
Q 012126          139 IYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDIS  218 (470)
Q Consensus       139 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  218 (470)
                      .|...|++++|++.|++.....                             ++...........++..+...|...|+++
T Consensus        94 ~~~~~g~~~~A~~~~~~al~~~-----------------------------~~~~~~~~~~~~~~~~~la~~~~~~g~~~  144 (283)
T 3edt_B           94 LYGKRGKYKEAEPLCKRALEIR-----------------------------EKVLGKFHPDVAKQLNNLALLCQNQGKAE  144 (283)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHH-----------------------------HHHHCTTCHHHHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHHH-----------------------------HHHcCCCChHHHHHHHHHHHHHHHcCCHH
Confidence            6666666666666666654310                             00000000113455666777777777777


Q ss_pred             HHHHHHHHHHHC------CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhC-------CCCCC-HhhHHHHHHHHHh
Q 012126          219 IAYTLFNKMFER------GVMP-DVESYRILMQGLCRKSQVNRAVDLLEDMLNK-------GFVPD-TLSYTTLLNSLCR  283 (470)
Q Consensus       219 ~a~~~~~~m~~~------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------~~~~~-~~~~~~ll~~~~~  283 (470)
                      +|..+|++..+.      +..| ...++..+..+|...|++++|++.++++.+.       ...+. ...+..+...+..
T Consensus       145 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  224 (283)
T 3edt_B          145 EVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREES  224 (283)
T ss_dssp             HHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhc
Confidence            777777776654      1111 3456666777777777777777777776642       11122 2223323323322


Q ss_pred             cCC------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          284 KKK------LREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       284 ~~~------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      .+.      +..+...++..... .+....++..+...|...|++++|..++++..+
T Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          225 KDKRRDSAPYGEYGSWYKACKVD-SPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             TCCCCC------------CCCCC-CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCchhHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            222      22222222222111 112345677777888888888888888877654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.11  E-value=8.9e-09  Score=90.71  Aligned_cols=180  Identities=9%  Similarity=0.037  Sum_probs=118.0

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC-CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012126          220 AYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGF-VPDTLSYTTLLNSLCRKKKLREAYKLLCRMK  298 (470)
Q Consensus       220 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  298 (470)
                      |...|++..+.+ .++..++..+..++...|++++|++++.+.+..+. .-+...+..++..+.+.|+.+.|.+.++.|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            667777776654 34555556777788888888888888888766654 1256677777888888888888888888887


Q ss_pred             HcCCCC-----CHHHHHHHHHHH--HhcC--CHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          299 VKGCNP-----DIVHYNTVVLGF--CREG--RAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       299 ~~~~~~-----~~~~~~~li~~~--~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      +.  .|     +..+...+..++  ...|  ++.+|..+|+++.+.  .|+..+...++.++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            65  44     244445555552  2223  788888888887664  35433333444477788888888888876654


Q ss_pred             C-----C----CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 012126          370 K-----G----FSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAG  406 (470)
Q Consensus       370 ~-----~----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  406 (470)
                      .     .    -+.+..++..+|......|+  +|.++++++.+..
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            2     0    02345566455555555665  7778888887743

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.10  E-value=6.5e-08  Score=85.27  Aligned_cols=179  Identities=10%  Similarity=0.059  Sum_probs=112.1

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 012126          185 AFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGV-MPDVESYRILMQGLCRKSQVNRAVDLLEDML  263 (470)
Q Consensus       185 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  263 (470)
                      ++..|++....+ .++..++..+..++...|++++|++++.+.++.|. .-+...+..++..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            555666655544 34555556777777777888888888877766553 1256667777777888888888888888776


Q ss_pred             hCCCCC-----CHhhHHHHHHHHH--hcC--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          264 NKGFVP-----DTLSYTTLLNSLC--RKK--KLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       264 ~~~~~~-----~~~~~~~ll~~~~--~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      +.  .|     +..+...|..++.  ..|  +.++|..+|+++.+.  .|+..+...++.++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            65  33     2344445554422  223  777888888887665  34433334444477778888888888776544


Q ss_pred             C-----CC----CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 012126          335 N-----GC----LPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK  370 (470)
Q Consensus       335 ~-----~~----~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  370 (470)
                      .     +.    +-|..++..+|......|+  +|.++++++.+.
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            2     00    2245555455555555565  777777777774

>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=99.10  E-value=9e-09  Score=79.75  Aligned_cols=130  Identities=13%  Similarity=0.171  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          308 HYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFC  387 (470)
Q Consensus       308 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  387 (470)
                      .|..+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|..+++++.+.+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            34555666666677777777776665542 2245566666666777777777777777776653 334566667777777


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          388 NVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      ..|++++|.++++++.+.. +.+...+..+...+...|++++|.+.++++.+.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            7777777777777776643 235667777777777788888888887777654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.09  E-value=7.4e-09  Score=92.68  Aligned_cols=205  Identities=14%  Similarity=0.053  Sum_probs=115.7

Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHHcCChHHHH
Q 012126          182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFER----GVMPD-VESYRILMQGLCRKSQVNRAV  256 (470)
Q Consensus       182 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~~~~~~a~  256 (470)
                      +++|...|.+.               ...|...|++++|.+.|++..+.    |-.++ ..+|+.+..+|...|++++|+
T Consensus        33 ~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~   97 (292)
T 1qqe_A           33 FEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAV   97 (292)
T ss_dssp             HHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHH
Confidence            66666666554               34566778888888877776543    21111 456777777777788888887


Q ss_pred             HHHHHHHhCCCC---C--CHhhHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHHhcCCHhHH
Q 012126          257 DLLEDMLNKGFV---P--DTLSYTTLLNSLCRK-KKLREAYKLLCRMKVKGCN-PD----IVHYNTVVLGFCREGRAIDA  325 (470)
Q Consensus       257 ~~~~~~~~~~~~---~--~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~~~~~~a  325 (470)
                      ..|++..+....   +  -..+++.+..+|... |++++|+..|++..+.... .+    ..+++.+...+.+.|++++|
T Consensus        98 ~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A  177 (292)
T 1qqe_A           98 DSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEA  177 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHH
Confidence            777776543110   0  123566666667664 7777777777766543100 01    23456666667777777777


Q ss_pred             HHHHHhchhCCCCCCH------HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC------HHHHHHHHHHHH--ccCC
Q 012126          326 CKVLEDMPSNGCLPNL------VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH------FSVSHALIKGFC--NVGK  391 (470)
Q Consensus       326 ~~~~~~m~~~~~~p~~------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~li~~~~--~~g~  391 (470)
                      +..|++..+.......      ..|..+..++...|++++|...+++..+.  .|+      ...+..++.+|.  ..++
T Consensus       178 ~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~  255 (292)
T 1qqe_A          178 SDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQ  255 (292)
T ss_dssp             HHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTT
T ss_pred             HHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHH
Confidence            7777766654322111      13455555666667777777776666542  222      112333444443  3445


Q ss_pred             HHHHHHHHHHHH
Q 012126          392 VDEACGVLEELL  403 (470)
Q Consensus       392 ~~~a~~~~~~~~  403 (470)
                      +++|...|+++.
T Consensus       256 ~~~A~~~~~~~~  267 (292)
T 1qqe_A          256 LSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHHTTSS
T ss_pred             HHHHHHHhccCC
Confidence            666666655543

>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=99.07  E-value=1.3e-08  Score=78.76  Aligned_cols=128  Identities=13%  Similarity=0.155  Sum_probs=64.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 012126          204 YNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR  283 (470)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  283 (470)
                      |..+...+...|++++|..+++++.+.+.. +...+..+...+...|++++|...++++...+.. +...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHH
Confidence            444555555556666666665555544322 4445555555555555555555555555544322 34444455555555


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          284 KKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       284 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      .|++++|...++++.+.. +.+...+..+...+.+.|++++|...++++.+
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            555555555555554432 12334444445555555555555555554443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.06  E-value=3.5e-07  Score=81.36  Aligned_cols=217  Identities=12%  Similarity=0.062  Sum_probs=128.8

Q ss_pred             hHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC--CchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHH
Q 012126          112 SLIDDILITLKSEHYPVTPSLFTYLIKIYAESN--LPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLF  189 (470)
Q Consensus       112 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~  189 (470)
                      ++|..+.+.++... |-+..+|+.--.++...|  +++++++.++.++.                               
T Consensus        50 ~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~-------------------------------   97 (306)
T 3dra_A           50 ERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIAL-------------------------------   97 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHH-------------------------------
T ss_pred             HHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHH-------------------------------
Confidence            46666666666554 445555665555555555  55555555555544                               


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHH----Hhc---CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChH--HHHHHHH
Q 012126          190 KSAHKHGVLPNTKSYNIMMRAF----CFN---GDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVN--RAVDLLE  260 (470)
Q Consensus       190 ~~~~~~~~~~~~~~~~~li~~~----~~~---g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~--~a~~~~~  260 (470)
                           ..++ +..+|+.-...+    ...   +++++++++++++.+...+ +..+|+.-.-.+.+.|.++  ++++.++
T Consensus        98 -----~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~  170 (306)
T 3dra_A           98 -----DNEK-NYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVD  170 (306)
T ss_dssp             -----HCTT-CCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHH
T ss_pred             -----HCcc-cHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHH
Confidence                 3222 333333222222    222   5566677777777666544 6666666655666666666  7777777


Q ss_pred             HHHhCCCCCCHhhHHHHHHHHHhcCC------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhH-HHHHHHhch
Q 012126          261 DMLNKGFVPDTLSYTTLLNSLCRKKK------LREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAID-ACKVLEDMP  333 (470)
Q Consensus       261 ~~~~~~~~~~~~~~~~ll~~~~~~~~------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~-a~~~~~~m~  333 (470)
                      ++.+..+. |..+|+.-...+.+.+.      ++++++.++.+.... +-|...|+.+-..+.+.|+..+ +..+..++.
T Consensus       171 ~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~  248 (306)
T 3dra_A          171 KVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFV  248 (306)
T ss_dssp             HHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTE
T ss_pred             HHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence            77766554 66666655555555554      677777777776653 3366677777777777666443 445666655


Q ss_pred             hCC--CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          334 SNG--CLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       334 ~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      +.+  -..+...+..++..+.+.|+.++|.++++.+.+
T Consensus       249 ~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          249 DLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             EGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            432  123566677777777777777777777777765

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.04  E-value=1.8e-08  Score=90.15  Aligned_cols=166  Identities=13%  Similarity=0.047  Sum_probs=93.0

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC---C--CHHHHHHHHHHHHHc-CChHHHHHHHHHHHhCCCCC-C----
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVM---P--DVESYRILMQGLCRK-SQVNRAVDLLEDMLNKGFVP-D----  270 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~---p--~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----  270 (470)
                      .+|+.+..+|...|++++|+..|++..+....   +  -..+++.+...|... |++++|+..|++..+..... +    
T Consensus        78 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~  157 (292)
T 1qqe_A           78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHH
Confidence            45666666666666666666666665442110   0  134566666667664 77777777777665431110 1    


Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH------HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCH---
Q 012126          271 TLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDI------VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNL---  341 (470)
Q Consensus       271 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~---  341 (470)
                      ..++..+...+.+.|++++|...|++..+.......      ..|..+..++...|++++|...|++..+.  .|+.   
T Consensus       158 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~  235 (292)
T 1qqe_A          158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADS  235 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCc
Confidence            235666677777777777777777777664322111      14555666677777777777777776653  2221   


Q ss_pred             ---HHHHHHHHHHH--hcCChHHHHHHHHHHHH
Q 012126          342 ---VSYRTLVGGLC--DQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       342 ---~~~~~li~~~~--~~g~~~~a~~~~~~~~~  369 (470)
                         ..+..++.++.  ..+++++|...|+.+..
T Consensus       236 ~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          236 RESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             --HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence               12334445553  34556666666655533

>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=99.03  E-value=5e-08  Score=82.64  Aligned_cols=175  Identities=14%  Similarity=-0.013  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC----CHHHHHHHHH
Q 012126          220 AYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKK----KLREAYKLLC  295 (470)
Q Consensus       220 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~~  295 (470)
                      |.+.|++..+.|   +...+..+...|...+++++|++.|++..+.|   +...+..|..+|.. +    +.++|.+.|+
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            444444444443   44445555555555555555555555555443   33444444444444 3    5555555555


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHh----cCCHhHHHHHHHhchhCCCC-CCHHHHHHHHHHHHh----cCChHHHHHHHHH
Q 012126          296 RMKVKGCNPDIVHYNTVVLGFCR----EGRAIDACKVLEDMPSNGCL-PNLVSYRTLVGGLCD----QGMFDVAKKYMQL  366 (470)
Q Consensus       296 ~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~----~g~~~~a~~~~~~  366 (470)
                      +..+.|   +...+..|...|..    .+++++|+.+|++..+.|.. .+...+..|...|..    .+++++|..+|++
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            554443   34444445444544    45555555555555554310 013444445555554    4555666666665


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHcc-C-----CHHHHHHHHHHHHHCC
Q 012126          367 MISKGFSPHFSVSHALIKGFCNV-G-----KVDEACGVLEELLKAG  406 (470)
Q Consensus       367 ~~~~~~~~~~~~~~~li~~~~~~-g-----~~~~a~~~~~~~~~~~  406 (470)
                      ..+.  ..+...+..|..+|... |     ++++|...|+...+.|
T Consensus       155 A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          155 SSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            5554  11223344444444322 2     5666666666555544

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.03  E-value=1.7e-08  Score=88.72  Aligned_cols=63  Identities=6%  Similarity=0.031  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCC---HHHHHHHHHHHHHcCCchhHHHHHHHHHh
Q 012126           95 NSTYLILILKLGRAKYFSLIDDILITLKSEHYPVT---PSLFTYLIKIYAESNLPDRALKTFRSMLE  158 (470)
Q Consensus        95 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~  158 (470)
                      ...+..+...+.+.|++++|...|+.+.... |.+   ..++..+..+|...|++++|+..|++.++
T Consensus        15 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~   80 (261)
T 3qky_A           15 PQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQ   80 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            3334444444444455555555554444432 222   34444444444455555555555544444

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.02  E-value=2.6e-08  Score=87.51  Aligned_cols=185  Identities=10%  Similarity=0.059  Sum_probs=113.9

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-C-CHhhH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPD---VESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV-P-DTLSY  274 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~  274 (470)
                      +...+..+...+.+.|++++|...|+++.+.... +   ...+..+..+|...|++++|+..|++..+..+. + ...++
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            5666777777777888888888888887776432 2   566777777788888888888888887765331 1 23455


Q ss_pred             HHHHHHHHh--------cCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHH
Q 012126          275 TTLLNSLCR--------KKKLREAYKLLCRMKVKGCNPDI-VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYR  345 (470)
Q Consensus       275 ~~ll~~~~~--------~~~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  345 (470)
                      ..+..++..        .|++++|...|+++.+.  .|+. .....+...              ..+...    ....+.
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~~--------------~~~~~~----~~~~~~  152 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQKI--------------RELRAK----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHHHH--------------HHHHHH----HHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHHHH--------------HHHHHH----HHHHHH
Confidence            566666766        77777777777777765  2322 222111110              000000    011134


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHcc----------CCHHHHHHHHHHHHHC
Q 012126          346 TLVGGLCDQGMFDVAKKYMQLMISKGFSP--HFSVSHALIKGFCNV----------GKVDEACGVLEELLKA  405 (470)
Q Consensus       346 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~  405 (470)
                      .+...|.+.|++++|...++++++.....  ....+..+..+|...          |++++|...|+++++.
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            45666777777888887777777642111  234556666666655          7777788888777764

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.01  E-value=2.8e-08  Score=83.96  Aligned_cols=24  Identities=17%  Similarity=0.110  Sum_probs=14.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHC
Q 012126          207 MMRAFCFNGDISIAYTLFNKMFER  230 (470)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~m~~~  230 (470)
                      ....+...|++++|...|++..+.
T Consensus        10 ~g~~~~~~g~~~~A~~~~~~al~~   33 (208)
T 3urz_A           10 KVSAAIEAGQNGQAVSYFRQTIAL   33 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh
Confidence            344455666666666666666554

>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=99.01  E-value=6.2e-08  Score=82.08  Aligned_cols=178  Identities=14%  Similarity=0.094  Sum_probs=135.4

Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC----ChHHHHHH
Q 012126          183 RPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKS----QVNRAVDL  258 (470)
Q Consensus       183 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----~~~~a~~~  258 (470)
                      .+|++.|++..+.|   +...+..|...|...+++++|.++|++..+.|   +...+..+...|.. +    ++++|+++
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            45667777777764   67788888888888899999999998888876   56777777777777 6    88899999


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHh----cCCHhHHHHHH
Q 012126          259 LEDMLNKGFVPDTLSYTTLLNSLCR----KKKLREAYKLLCRMKVKGCN-PDIVHYNTVVLGFCR----EGRAIDACKVL  329 (470)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~  329 (470)
                      |++..+.|   +...+..|..+|..    .+++++|.+.|++..+.|.. .+...+..|...|..    .+++++|+..|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            98887765   56677777777876    78899999999988877521 126777788888887    77899999999


Q ss_pred             HhchhCCCCCCHHHHHHHHHHHHhc-C-----ChHHHHHHHHHHHHCCC
Q 012126          330 EDMPSNGCLPNLVSYRTLVGGLCDQ-G-----MFDVAKKYMQLMISKGF  372 (470)
Q Consensus       330 ~~m~~~~~~p~~~~~~~li~~~~~~-g-----~~~~a~~~~~~~~~~~~  372 (470)
                      ++..+.  ..+...+..|...|... |     +.++|..+++...+.|.
T Consensus       153 ~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          153 KGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            988775  23445666677776543 3     78999999998888763

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.99  E-value=2.2e-07  Score=82.71  Aligned_cols=226  Identities=10%  Similarity=0.046  Sum_probs=155.6

Q ss_pred             HHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccC--CchHHHHHHHHHhhCCCCCCHHHHHHHHHHH----
Q 012126           67 KLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAK--YFSLIDDILITLKSEHYPVTPSLFTYLIKIY----  140 (470)
Q Consensus        67 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~----  140 (470)
                      .+.......++|+++++.++...  +-....|+.--..+...+  +++++.+.++.+.... |-+..+|+.-..++    
T Consensus        41 a~~~~~e~s~~aL~~t~~~L~~n--P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~  117 (306)
T 3dra_A           41 ALMKAEEYSERALHITELGINEL--ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIM  117 (306)
T ss_dssp             HHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHC--cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHH
Confidence            44455666679999999988654  345667888778888888  9999999999998876 66777888755555    


Q ss_pred             HHc---CCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChh--hHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 012126          141 AES---NLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLR--PAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNG  215 (470)
Q Consensus       141 ~~~---g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  215 (470)
                      ...   +++++++++++.+.+.+ .-+...|+.---.+. ..+.++  ++++.++++.+..+. |...|+.-...+...|
T Consensus       118 ~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~-~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~  194 (306)
T 3dra_A          118 ELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVD-TFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKK  194 (306)
T ss_dssp             HHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH-HTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSG
T ss_pred             HhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-HhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcc
Confidence            555   67888888888888743 123344443332222 334456  788888888876654 7777776666666666


Q ss_pred             C------hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC--CCCCHhhHHHHHHHHHhcCC
Q 012126          216 D------ISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNR-AVDLLEDMLNKG--FVPDTLSYTTLLNSLCRKKK  286 (470)
Q Consensus       216 ~------~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~  286 (470)
                      .      ++++++.+++++...+. |...|+-+...+.+.|.... +..+..++.+.+  -..+...+..+.++|.+.|+
T Consensus       195 ~~~~~~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~  273 (306)
T 3dra_A          195 HLATDNTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKK  273 (306)
T ss_dssp             GGCCHHHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTC
T ss_pred             ccchhhhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCC
Confidence            5      77777777777777655 77777777777777766333 445555554432  12256677777777777777


Q ss_pred             HHHHHHHHHHHHH
Q 012126          287 LREAYKLLCRMKV  299 (470)
Q Consensus       287 ~~~a~~~~~~m~~  299 (470)
                      .++|.++++.+.+
T Consensus       274 ~~~A~~~~~~l~~  286 (306)
T 3dra_A          274 YNESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777777765

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.99  E-value=4.1e-08  Score=82.96  Aligned_cols=192  Identities=12%  Similarity=0.049  Sum_probs=119.0

Q ss_pred             HHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 012126          131 SLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRA  210 (470)
Q Consensus       131 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  210 (470)
                      ..+......+...|++++|+..|++..+.  .|+.........    ....               ........+.+..+
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~----~~~~---------------~~~~~~~~~~lg~~   63 (208)
T 3urz_A            5 DEMLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTN----VDKN---------------SEISSKLATELALA   63 (208)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHH----SCTT---------------SHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhh----hcch---------------hhhhHHHHHHHHHH
Confidence            33444555666778888888888877763  243322111100    0000               00122334457778


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC--HH
Q 012126          211 FCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKK--LR  288 (470)
Q Consensus       211 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~--~~  288 (470)
                      |.+.|++++|...|++..+..+. +...+..+..++...|++++|+..|++..+..+. +..++..+..+|...|+  .+
T Consensus        64 ~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~  141 (208)
T 3urz_A           64 YKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAEQEKK  141 (208)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhHHHHH
Confidence            88888888888888888877544 6778888888888888888888888888876544 66777777777765543  34


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHH
Q 012126          289 EAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVG  349 (470)
Q Consensus       289 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  349 (470)
                      .+...++.....  .|....+.....++...|++++|...|++..+.  .|+......+..
T Consensus       142 ~~~~~~~~~~~~--~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l~~  198 (208)
T 3urz_A          142 KLETDYKKLSSP--TKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHHHC---CC--CHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHHHH
T ss_pred             HHHHHHHHHhCC--CchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHHHH
Confidence            455555555422  222333444555666778888888888888774  577655554433

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.98  E-value=1e-08  Score=84.10  Aligned_cols=161  Identities=12%  Similarity=0.023  Sum_probs=96.5

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHH-H
Q 012126           98 YLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELL-V  176 (470)
Q Consensus        98 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~-~  176 (470)
                      +......+.+.|++++|...++...+.. |.+...+..+..++...|++++|+..|++....  .|+.. +..+...+ .
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~-~~~~~~~~~~   84 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNS-YKSLIAKLEL   84 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHH-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChH-HHHHHHHHHH
Confidence            3344445566666666666666655443 445666666666666677777777766665542  23222 22221111 1


Q ss_pred             hcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCChHHH
Q 012126          177 THRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMP-DVESYRILMQGLCRKSQVNRA  255 (470)
Q Consensus       177 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a  255 (470)
                      ...+....+...+++..+..+. +...+..+...+...|++++|...|+++.+..+.+ +...+..+..++...|+.++|
T Consensus        85 ~~~~~~~~a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HhhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            1111123456666666665432 56777777778888888888888888877765432 345677777777788888888


Q ss_pred             HHHHHHHH
Q 012126          256 VDLLEDML  263 (470)
Q Consensus       256 ~~~~~~~~  263 (470)
                      ...|++..
T Consensus       164 ~~~y~~al  171 (176)
T 2r5s_A          164 ASKYRRQL  171 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77777654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.97  E-value=4.5e-08  Score=87.28  Aligned_cols=167  Identities=7%  Similarity=-0.016  Sum_probs=114.8

Q ss_pred             CCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHH
Q 012126           93 HSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRIL  172 (470)
Q Consensus        93 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll  172 (470)
                      .+...+..+...+.+.|++++|...++...... |.+...+..+...+...|++++|+..++++...  .|+........
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~  191 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVA  191 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHH
Confidence            345566677777788888888888888887765 567777888888888888888888888877663  35554444433


Q ss_pred             HHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCC
Q 012126          173 ELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMP-DVESYRILMQGLCRKSQ  251 (470)
Q Consensus       173 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~  251 (470)
                      .......+..+.|...+++.....+. +...+..+...+...|++++|...|.++.+..... +...+..++..+...|+
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCT
T ss_pred             HHHHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCC
Confidence            33333444456677777777765532 66777777777777777777777777777764331 24567777777777777


Q ss_pred             hHHHHHHHHHHH
Q 012126          252 VNRAVDLLEDML  263 (470)
Q Consensus       252 ~~~a~~~~~~~~  263 (470)
                      .++|...|++..
T Consensus       271 ~~~a~~~~r~al  282 (287)
T 3qou_A          271 GDALASXYRRQL  282 (287)
T ss_dssp             TCHHHHHHHHHH
T ss_pred             CCcHHHHHHHHH
Confidence            777777776543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.95  E-value=1.6e-06  Score=83.17  Aligned_cols=347  Identities=10%  Similarity=-0.002  Sum_probs=218.6

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCC-chHHHHHHHHHhhC-CC-CCCHHHHHHHHHHHH----HcC
Q 012126           72 QSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKY-FSLIDDILITLKSE-HY-PVTPSLFTYLIKIYA----ESN  144 (470)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~-~~-~~~~~~~~~li~~~~----~~g  144 (470)
                      .++.+.+..+|+.....   .|+...|...+....+.+. .+.+..+|+..... |. +.+..+|...+..+.    ..|
T Consensus        27 ~~~~e~~~~iferal~~---~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~  103 (493)
T 2uy1_A           27 SKDYRSLESLFGRCLKK---SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQT  103 (493)
T ss_dssp             TTCHHHHHHHHHHHSTT---CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHH
T ss_pred             CCCHHHHHHHHHHHhcc---CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhH
Confidence            38899999999999864   3689999888887777653 45677788877654 32 447788888887654    346


Q ss_pred             CchhHHHHHHHHHhCCCccCHHHHHHHHHHHHh------------cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          145 LPDRALKTFRSMLEFNCKPLPKQLNRILELLVT------------HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFC  212 (470)
Q Consensus       145 ~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  212 (470)
                      +.+.+.++|++.+......-...|......-..            ....+..|..+++.+...-...+...|...+..-.
T Consensus       104 ~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~  183 (493)
T 2uy1_A          104 RIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEM  183 (493)
T ss_dssp             HHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHh
Confidence            788899999999873221111222222111000            00112334444444432100013446666555432


Q ss_pred             hcC--C-----hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 012126          213 FNG--D-----ISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKK  285 (470)
Q Consensus       213 ~~g--~-----~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  285 (470)
                      ..+  -     .+.+..+|++++.... .+...|...+..+.+.|+.+.|..+|++....   |.......   .|+...
T Consensus       184 ~~~~~~~~~~~~~Rv~~~ye~al~~~p-~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~---~y~~~~  256 (493)
T 2uy1_A          184 ENGMKLGGRPHESRMHFIHNYILDSFY-YAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSL---YYGLVM  256 (493)
T ss_dssp             TCTTCCCHHHHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHH---HHHHHT
T ss_pred             cCCccCcchhhHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHH---HHHhhc
Confidence            211  1     3456789999887643 36788888888889999999999999999987   33322211   222221


Q ss_pred             CHHHHHHHHHHHHHcC---------C---CCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHh
Q 012126          286 KLREAYKLLCRMKVKG---------C---NPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCD  353 (470)
Q Consensus       286 ~~~~a~~~~~~m~~~~---------~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  353 (470)
                      ..++.   ++.+.+.-         .   ......|-..+....+.+..+.|..+|+.. ... ..+...|...+..-..
T Consensus       257 e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~  331 (493)
T 2uy1_A          257 DEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYY  331 (493)
T ss_dssp             TCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHH
T ss_pred             chhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHH
Confidence            11111   22222210         0   111245666677777788899999999998 321 2344455433322222


Q ss_pred             -cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHH
Q 012126          354 -QGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGE  432 (470)
Q Consensus       354 -~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  432 (470)
                       .++.+.|..+|+...+.- +-+...+...++...+.|+.+.|..+|+.+.     .....|...+..-...|+.+.+..
T Consensus       332 ~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~  405 (493)
T 2uy1_A          332 ATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRE  405 (493)
T ss_dssp             HHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             HCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHH
Confidence             336999999999998853 3345566777888888999999999999972     257888888887778899999999


Q ss_pred             HHHHHHH
Q 012126          433 VLNEIVK  439 (470)
Q Consensus       433 ~~~~m~~  439 (470)
                      +++++.+
T Consensus       406 v~~~~~~  412 (493)
T 2uy1_A          406 LVDQKMD  412 (493)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988875

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.94  E-value=1.1e-08  Score=102.72  Aligned_cols=174  Identities=9%  Similarity=-0.053  Sum_probs=131.4

Q ss_pred             HccCCchHHHHHHHHHh--------hCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHh
Q 012126          106 GRAKYFSLIDDILITLK--------SEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVT  177 (470)
Q Consensus       106 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~  177 (470)
                      ...|++++|.+.++...        +.. +.+...+..+...|...|++++|++.|++..+.  .|+.......+..++.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~  478 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAEL  478 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHH
Confidence            67788888888888887        433 556777888888888888888888888888773  4555444445555555


Q ss_pred             cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVD  257 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  257 (470)
                      ..|++++|...|++..+.... +...|..+..+|.+.|++++ .+.|++..+.+.. +...|..+..++.+.|++++|++
T Consensus       479 ~~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          479 LTGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HHTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHH
Confidence            667788888888888876543 67788888899999999999 9999998887544 67888889999999999999999


Q ss_pred             HHHHHHhCCCCCCHhhHHHHHHHHHhcCC
Q 012126          258 LLEDMLNKGFVPDTLSYTTLLNSLCRKKK  286 (470)
Q Consensus       258 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  286 (470)
                      .|++..+.+.. +...+..+..++...++
T Consensus       556 ~~~~al~l~P~-~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          556 TLDEVPPTSRH-FTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHTSCTTSTT-HHHHHHHHHHHTC----
T ss_pred             HHHhhcccCcc-cHHHHHHHHHHHHccCC
Confidence            99988776433 45667777777655444

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.93  E-value=1.4e-08  Score=101.94  Aligned_cols=188  Identities=10%  Similarity=-0.022  Sum_probs=146.9

Q ss_pred             HHcCCchhHHHHHHHHHh------CCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 012126          141 AESNLPDRALKTFRSMLE------FNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFN  214 (470)
Q Consensus       141 ~~~g~~~~A~~~~~~~~~------~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  214 (470)
                      ...|++++|++.+++..+      ....|+.......+...+...|++++|...|++..+.... +...|..+..+|...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHHc
Confidence            678999999999999881      1134554444444444445667799999999999986543 788999999999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 012126          215 GDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLL  294 (470)
Q Consensus       215 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  294 (470)
                      |++++|.+.|++..+.... +...|..+..++.+.|++++ ++.|++..+.+.. +...+..+..++.+.|++++|...|
T Consensus       481 g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999887544 67788889999999999999 9999999887655 7778999999999999999999999


Q ss_pred             HHHHHcCCCCC-HHHHHHHHHHHHhcC--------CHhHHHHHHHhchh
Q 012126          295 CRMKVKGCNPD-IVHYNTVVLGFCREG--------RAIDACKVLEDMPS  334 (470)
Q Consensus       295 ~~m~~~~~~~~-~~~~~~li~~~~~~~--------~~~~a~~~~~~m~~  334 (470)
                      ++..+.  .|+ ...+..+..++...+        ++++|.+.+..+..
T Consensus       558 ~~al~l--~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~  604 (681)
T 2pzi_A          558 DEVPPT--SRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPP  604 (681)
T ss_dssp             HTSCTT--STTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCT
T ss_pred             Hhhccc--CcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCC
Confidence            998876  444 566777777765544        36677777776643

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.90  E-value=2.9e-08  Score=81.39  Aligned_cols=164  Identities=15%  Similarity=0.104  Sum_probs=126.5

Q ss_pred             CChHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 012126           60 GSPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKI  139 (470)
Q Consensus        60 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  139 (470)
                      .........+...|+++.|+..|+.+....  +.+...+..+...+.+.|++++|...++...... | ++..+..+...
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~-p-~~~~~~~~~~~   82 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDEL--QSRGDVKLAKADCLLETKQFELAQELLATIPLEY-Q-DNSYKSLIAKL   82 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHHH--HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG-C-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc-C-ChHHHHHHHHH
Confidence            344566788899999999999999987654  4578889999999999999999999999987664 3 55544433322


Q ss_pred             -HHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCh
Q 012126          140 -YAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLP-NTKSYNIMMRAFCFNGDI  217 (470)
Q Consensus       140 -~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~  217 (470)
                       +...+...+|+..|++..+  ..|+.......+..+....|++++|...|+++.+....+ +...+..+...+...|+.
T Consensus        83 ~~~~~~~~~~a~~~~~~al~--~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  160 (176)
T 2r5s_A           83 ELHQQAAESPELKRLEQELA--ANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQG  160 (176)
T ss_dssp             HHHHHHTSCHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSS
T ss_pred             HHHhhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCC
Confidence             2233444568899999887  457655555556666667888999999999999876543 466889999999999999


Q ss_pred             hHHHHHHHHHHH
Q 012126          218 SIAYTLFNKMFE  229 (470)
Q Consensus       218 ~~a~~~~~~m~~  229 (470)
                      ++|...|++...
T Consensus       161 ~~A~~~y~~al~  172 (176)
T 2r5s_A          161 NAIASKYRRQLY  172 (176)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHH
Confidence            999999987654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.89  E-value=3e-07  Score=78.66  Aligned_cols=203  Identities=9%  Similarity=-0.011  Sum_probs=114.5

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCH--hhHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMP--DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDT--LSYT  275 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  275 (470)
                      +...+..+...+...|++++|...|+++.+.....  ....+..+..+|.+.|++++|+..|+++.+..+....  .++.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            34455556666777777777777777777653321  1345666677777777777777777777765433111  1233


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHH-HHHHHHHHHHhc
Q 012126          276 TLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLV-SYRTLVGGLCDQ  354 (470)
Q Consensus       276 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~  354 (470)
                      .+..++...+..     .+            ..|..+...+...|++++|+..|+++.+.  .|+.. .+.....     
T Consensus        83 ~~g~~~~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~-----  138 (225)
T 2yhc_A           83 MRGLTNMALDDS-----AL------------QGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR-----  138 (225)
T ss_dssp             HHHHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH-----
T ss_pred             HHHHHHHhhhhh-----hh------------hhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH-----
Confidence            333333332210     00            01122223334567778888888887764  23322 2211110     


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHcCCcHHHH
Q 012126          355 GMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPH----EDTWVMIVPQICAGEEMEKL  430 (470)
Q Consensus       355 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~a  430 (470)
                           ...+...+.        .....+...|.+.|++++|...|+++++..  |+    ...+..+..+|.+.|++++|
T Consensus       139 -----l~~~~~~~~--------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A  203 (225)
T 2yhc_A          139 -----LVFLKDRLA--------KYEYSVAEYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNAQA  203 (225)
T ss_dssp             -----HHHHHHHHH--------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             -----HHHHHHHHH--------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHH
Confidence                 000011110        112345677888899999999999988753  33    24678888889999999999


Q ss_pred             HHHHHHHHHcc
Q 012126          431 GEVLNEIVKVE  441 (470)
Q Consensus       431 ~~~~~~m~~~~  441 (470)
                      .+.++.+...+
T Consensus       204 ~~~~~~l~~~~  214 (225)
T 2yhc_A          204 EKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHhhC
Confidence            99999888654

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.88  E-value=1.1e-08  Score=81.42  Aligned_cols=83  Identities=10%  Similarity=0.060  Sum_probs=37.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 012126          205 NIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRK  284 (470)
Q Consensus       205 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  284 (470)
                      ..+...|.+.|++++|.+.|++.++.... +..+|..+..+|...|++++|+..|++..+..+. +..++..+..+|.+.
T Consensus        35 ~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~  112 (150)
T 4ga2_A           35 FYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTDKAVECYRRSVELNPT-QKDLVLKIAELLCKN  112 (150)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            33444444444444444444444444322 3444444444444444444444444444443322 334444444444444


Q ss_pred             CCHHH
Q 012126          285 KKLRE  289 (470)
Q Consensus       285 ~~~~~  289 (470)
                      |+.++
T Consensus       113 ~~~~~  117 (150)
T 4ga2_A          113 DVTDG  117 (150)
T ss_dssp             CSSSS
T ss_pred             CChHH
Confidence            44443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.88  E-value=2.1e-07  Score=79.61  Aligned_cols=191  Identities=8%  Similarity=0.040  Sum_probs=110.4

Q ss_pred             cCCChhhHHHHHHHHHHCCCC-C-CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHHcCChH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVL-P-NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDV--ESYRILMQGLCRKSQVN  253 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~  253 (470)
                      ..|++++|...|+++.+.... + ....+..+..+|.+.|++++|+..|+++.+..+....  ..+..+..++...+.. 
T Consensus        16 ~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~-   94 (225)
T 2yhc_A           16 QDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDS-   94 (225)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--
T ss_pred             HcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhh-
Confidence            556799999999999976432 1 2467888899999999999999999999987543221  2444455555543311 


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCCHhHHHHHHHhc
Q 012126          254 RAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDI-VHYNTVVLGFCREGRAIDACKVLEDM  332 (470)
Q Consensus       254 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m  332 (470)
                          .+.            .|..+...+...|+.++|...|+++.+.  .|+. ..+.+.....          .+...+
T Consensus        95 ----~~~------------~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~----------~~~~~~  146 (225)
T 2yhc_A           95 ----ALQ------------GFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLV----------FLKDRL  146 (225)
T ss_dssp             -----------------------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHH----------HHHHHH
T ss_pred             ----hhh------------hhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHH----------HHHHHH
Confidence                110            1222333444567777777777777765  2332 2222111100          000000


Q ss_pred             hhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 012126          333 PSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH---FSVSHALIKGFCNVGKVDEACGVLEELLKAG  406 (470)
Q Consensus       333 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  406 (470)
                      .        .....+...+.+.|++++|...++++++.. +.+   ...+..+..+|.+.|++++|.+.++.+...+
T Consensus       147 ~--------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 A--------KYEYSVAEYYTERGAWVAVVNRVEGMLRDY-PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             H--------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             H--------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHC-cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            0        011234556677777777777777777642 111   2456667777777788888877777776654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.88  E-value=9.2e-08  Score=85.21  Aligned_cols=164  Identities=15%  Similarity=0.055  Sum_probs=98.9

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHH-HH
Q 012126          271 TLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTL-VG  349 (470)
Q Consensus       271 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-i~  349 (470)
                      ...+..+...+...|++++|...|++..+.. +-+...+..+...+.+.|++++|...++++...  .|+....... ..
T Consensus       117 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~  193 (287)
T 3qou_A          117 EELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQI  193 (287)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHH
Confidence            3444555556666677777777776666552 224556666666677777777777777766554  2443322222 22


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHcCCcHH
Q 012126          350 GLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAP-HEDTWVMIVPQICAGEEME  428 (470)
Q Consensus       350 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~  428 (470)
                      .+...++.+.|...+++..+.. +.+...+..+...+...|++++|...|+++++..... +...+..++..+...|+.+
T Consensus       194 ~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  272 (287)
T 3qou_A          194 ELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGD  272 (287)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTC
T ss_pred             HHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCC
Confidence            2445566666666676666653 3455666677777777777777777777776643211 1446667777777777777


Q ss_pred             HHHHHHHHHH
Q 012126          429 KLGEVLNEIV  438 (470)
Q Consensus       429 ~a~~~~~~m~  438 (470)
                      +|...+++.+
T Consensus       273 ~a~~~~r~al  282 (287)
T 3qou_A          273 ALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHH
T ss_pred             cHHHHHHHHH
Confidence            7776666654

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.86  E-value=1.1e-08  Score=81.33  Aligned_cols=143  Identities=9%  Similarity=-0.104  Sum_probs=84.3

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHH
Q 012126          209 RAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLR  288 (470)
Q Consensus       209 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  288 (470)
                      ..+...|++++|+..++........ +...+..+...|.+.|++++|++.|++.++..+. +..+|..+..+|.+.|+++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~~p~-~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPSPRQ-KSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCSHHH-HHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcChHHHHHHHHHHhcccCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchH
Confidence            3444556667777766665543211 3344555666777777777777777777665443 5666777777777777777


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHH-HHhchhCCCCCCHHHHHHHHHHHHhcC
Q 012126          289 EAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKV-LEDMPSNGCLPNLVSYRTLVGGLCDQG  355 (470)
Q Consensus       289 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~-~~~m~~~~~~p~~~~~~~li~~~~~~g  355 (470)
                      +|...|++..+.. +-+...|..+...|.+.|++++|.+. +++..+.. +-+...|......+...|
T Consensus        83 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           83 KAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            7777777766652 22456666666777777776655543 35555532 123455555555555544

>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=98.83  E-value=5.2e-07  Score=80.64  Aligned_cols=164  Identities=10%  Similarity=0.075  Sum_probs=112.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCC-CCCH----HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCC-CC----HHHHHH
Q 012126          277 LLNSLCRKKKLREAYKLLCRMKVKGC-NPDI----VHYNTVVLGFCREGRAIDACKVLEDMPSNGCL-PN----LVSYRT  346 (470)
Q Consensus       277 ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~  346 (470)
                      .+..+...|++++|..++++..+... .++.    ..+..+...+...|++++|+..+++..+.... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            35566777888888888877765421 1221    12334555666677888888888887763222 22    235777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC-----CCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHC----CCCCC-HHHHH
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMISK-----GFSPH-FSVSHALIKGFCNVGKVDEACGVLEELLKA----GEAPH-EDTWV  415 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~-~~~~~  415 (470)
                      +...|...|++++|...++++.+.     +..+. ..++..+...|.+.|++++|.+.+++.++.    +..+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            888888888888888888887741     11111 337778888899999999999998887642    22222 56888


Q ss_pred             HHHHHHHcCC-cHHHHHHHHHHHHHc
Q 012126          416 MIVPQICAGE-EMEKLGEVLNEIVKV  440 (470)
Q Consensus       416 ~l~~~~~~~g-~~~~a~~~~~~m~~~  440 (470)
                      .+..+|.+.| ++++|.+.+++++..
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            8888899999 469999999888764

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.82  E-value=1e-07  Score=93.99  Aligned_cols=154  Identities=10%  Similarity=-0.032  Sum_probs=85.9

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHH
Q 012126           72 QSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALK  151 (470)
Q Consensus        72 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  151 (470)
                      .|++++|++.|+.+.+..  +.+...+..+...+.+.|++++|.+.+++..+.. +.+...+..+...|...|++++|++
T Consensus         2 ~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR--PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            466777777777776543  3456777777777777788888888777777664 5567777777777777777777777


Q ss_pred             HHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---CChhHHHHHHHHHH
Q 012126          152 TFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFN---GDISIAYTLFNKMF  228 (470)
Q Consensus       152 ~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m~  228 (470)
                      .|++..+.  .|+.......+..++...|++++|.+.|++..+.... +...+..+...+...   |++++|.+.+++..
T Consensus        79 ~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al  155 (568)
T 2vsy_A           79 LLQQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAV  155 (568)
T ss_dssp             HHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHH
T ss_pred             HHHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHH
Confidence            77777663  2433333333333334555566666666666654422 455566666666666   66666666666665


Q ss_pred             HCC
Q 012126          229 ERG  231 (470)
Q Consensus       229 ~~~  231 (470)
                      +.+
T Consensus       156 ~~~  158 (568)
T 2vsy_A          156 AQG  158 (568)
T ss_dssp             HHT
T ss_pred             hcC
Confidence            554

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.82  E-value=1.2e-07  Score=93.41  Aligned_cols=149  Identities=10%  Similarity=-0.101  Sum_probs=62.3

Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 012126          182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLED  261 (470)
Q Consensus       182 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  261 (470)
                      +++|...|++..+.... +...+..+...+...|++++|.+.|++..+.... +...+..+..+|...|++++|++.+++
T Consensus         5 ~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~   82 (568)
T 2vsy_A            5 GPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVLLQQ   82 (568)
T ss_dssp             ----------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            34444444444333211 3444444445555555555555555554443322 344444444555555555555555555


Q ss_pred             HHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc---CCHhHHHHHHHhchh
Q 012126          262 MLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCRE---GRAIDACKVLEDMPS  334 (470)
Q Consensus       262 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~  334 (470)
                      ..+.... +...+..+..+|.+.|++++|.+.+++..+.. +.+...+..+...+...   |++++|.+.+++..+
T Consensus        83 al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           83 ASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            4443322 34444444455555555555555555544431 12334444444444444   555555555554444

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.81  E-value=4.8e-08  Score=88.05  Aligned_cols=223  Identities=14%  Similarity=0.014  Sum_probs=151.3

Q ss_pred             CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHH
Q 012126          180 NYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCF-NGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDL  258 (470)
Q Consensus       180 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  258 (470)
                      |++++|.+++++..+...  .         .+.. .++++.|...|.+.               ...|...|++++|...
T Consensus         5 ~~~~eA~~~~~~a~k~~~--~---------~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~   58 (307)
T 2ifu_A            5 QKISEAHEHIAKAEKYLK--T---------SFMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDA   58 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHC--C---------CSSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHcc--c---------cccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHH
Confidence            346667777766654311  1         1222 46667766666654               4567788999999999


Q ss_pred             HHHHHhCCC----CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHhHHHHH
Q 012126          259 LEDMLNKGF----VP-DTLSYTTLLNSLCRKKKLREAYKLLCRMKVK----GCNP-DIVHYNTVVLGFCREGRAIDACKV  328 (470)
Q Consensus       259 ~~~~~~~~~----~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~  328 (470)
                      |.+..+...    .. -..+|+.+..+|.+.|++++|...|++..+.    |-.. ...+++.+...|.. |++++|+..
T Consensus        59 ~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~  137 (307)
T 2ifu_A           59 YLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHL  137 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHH
Confidence            988765321    11 1357888888999999999999999987653    2111 13567778888888 999999999


Q ss_pred             HHhchhCCCCC-C----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHccCCHHHHHHH
Q 012126          329 LEDMPSNGCLP-N----LVSYRTLVGGLCDQGMFDVAKKYMQLMISK----GFSPH-FSVSHALIKGFCNVGKVDEACGV  398 (470)
Q Consensus       329 ~~~m~~~~~~p-~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~  398 (470)
                      |++..+..... +    ..++..+...+...|++++|+..+++..+.    +..+. ...+..+..++...|++++|...
T Consensus       138 ~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~  217 (307)
T 2ifu_A          138 YQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKC  217 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99876531111 1    456778888999999999999999988763    21111 22566677778888999999999


Q ss_pred             HHHHHHCCCCCCHH------HHHHHHHHHHcCCcHHHHHHH
Q 012126          399 LEELLKAGEAPHED------TWVMIVPQICAGEEMEKLGEV  433 (470)
Q Consensus       399 ~~~~~~~~~~p~~~------~~~~l~~~~~~~g~~~~a~~~  433 (470)
                      |++.+ ..  |+..      ....++.++ ..|+.+.+.++
T Consensus       218 ~~~al-~~--p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          218 VRESY-SI--PGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHT-TS--TTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHh-CC--CCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            99988 43  4321      234455544 56777766664

>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=98.81  E-value=7.1e-06  Score=73.78  Aligned_cols=223  Identities=11%  Similarity=0.035  Sum_probs=105.8

Q ss_pred             HccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC-CchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhh
Q 012126          106 GRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESN-LPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRP  184 (470)
Q Consensus       106 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~  184 (470)
                      .+....++|.++++.+.... |-+..+|+.--.++...| .+++++++++.+...+  |.                    
T Consensus        65 ~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n--PK--------------------  121 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN--LK--------------------  121 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT--CC--------------------
T ss_pred             HhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC--CC--------------------
Confidence            33444456777777777665 556666666666665556 3666666666665532  22                    


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-C-ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChH--------H
Q 012126          185 AFDLFKSAHKHGVLPNTKSYNIMMRAFCFN-G-DISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVN--------R  254 (470)
Q Consensus       185 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~--------~  254 (470)
                                     +..+|+.-...+... + ++++++++++++.+...+ +..+|+--.-.+.+.|.++        +
T Consensus       122 ---------------ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~e  185 (349)
T 3q7a_A          122 ---------------SYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGS  185 (349)
T ss_dssp             ---------------CHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHH
T ss_pred             ---------------cHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHH
Confidence                           333333333222222 2 344444444444444322 3344433333333333333        5


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC-------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH-----
Q 012126          255 AVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKK-------LREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRA-----  322 (470)
Q Consensus       255 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~-----  322 (470)
                      +++.++++.+..+. |..+|+.....+.+.+.       ++++++.+++..... +-|...|+-+-..+.+.|+.     
T Consensus       186 ELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~  263 (349)
T 3q7a_A          186 ELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPIL  263 (349)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGH
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCccccc
Confidence            55555555555443 55555555555544443       455666665555542 22455555544444444432     


Q ss_pred             ---------------hHHHHHHHhchhCC-----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          323 ---------------IDACKVLEDMPSNG-----CLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       323 ---------------~~a~~~~~~m~~~~-----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                                     .+..++..++...+     -.++...+..++..|...|+.++|.++++.+.+
T Consensus       264 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          264 PAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             HHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence                           12222222222211     023445555555566666666666666665543

>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=98.77  E-value=2e-06  Score=76.81  Aligned_cols=125  Identities=10%  Similarity=0.087  Sum_probs=60.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCC-CCCH----HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-CC----HhhHHHH
Q 012126          208 MRAFCFNGDISIAYTLFNKMFERGV-MPDV----ESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV-PD----TLSYTTL  277 (470)
Q Consensus       208 i~~~~~~g~~~~a~~~~~~m~~~~~-~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l  277 (470)
                      +..+...|++++|.+++++..+... .|+.    ..+..+...+...+++++|+..+++..+.... .+    ..+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            4555666666666666666655321 1111    12223444444455666666666666553221 11    1245555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc-----CCCCC-HHHHHHHHHHHHhcCCHhHHHHHHHhc
Q 012126          278 LNSLCRKKKLREAYKLLCRMKVK-----GCNPD-IVHYNTVVLGFCREGRAIDACKVLEDM  332 (470)
Q Consensus       278 l~~~~~~~~~~~a~~~~~~m~~~-----~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m  332 (470)
                      ..+|...|++++|...|++..+.     +..+. ..+|..+...|.+.|++++|+..+++.
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~a  222 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKA  222 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            55666666666666666555421     00111 123444444455555555555544443

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.75  E-value=2.1e-07  Score=83.80  Aligned_cols=121  Identities=12%  Similarity=0.014  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-----CHHHHHHHHHHHHHcCChHHHHHHHHHHHhC----CCCCC-H
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMP-----DVESYRILMQGLCRKSQVNRAVDLLEDMLNK----GFVPD-T  271 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~  271 (470)
                      .+++.+...|.. |++++|+..|++..+.....     ...++..+...|...|++++|+..|++..+.    +..+. .
T Consensus       117 ~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  195 (307)
T 2ifu_A          117 MALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCY  195 (307)
T ss_dssp             HHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHH
Confidence            455566666666 77777777776655431100     1345666677777777777777777766542    11111 1


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC------HHHHHHHHHHHHhcCCHhHHHH
Q 012126          272 LSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPD------IVHYNTVVLGFCREGRAIDACK  327 (470)
Q Consensus       272 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~------~~~~~~li~~~~~~~~~~~a~~  327 (470)
                      ..+..+..++...|++++|...|++.. .  .|+      ......++.++ ..|+.+.+.+
T Consensus       196 ~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          196 KKCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            245555666666677777777777766 3  221      11233444444 4566655555

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.75  E-value=6.1e-07  Score=75.79  Aligned_cols=128  Identities=12%  Similarity=-0.030  Sum_probs=87.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHH
Q 012126          273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLC  352 (470)
Q Consensus       273 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  352 (470)
                      .+..+...+...|++++|...|++..    .|+...|..+...|.+.|++++|+..+++..+.. +.+...+..+..++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            34455666677777777777777663    4566777777777777777777777777776643 235566777777777


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCC----------------HHHHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 012126          353 DQGMFDVAKKYMQLMISKGFSPH----------------FSVSHALIKGFCNVGKVDEACGVLEELLKAG  406 (470)
Q Consensus       353 ~~g~~~~a~~~~~~~~~~~~~~~----------------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  406 (470)
                      ..|++++|...+++..+.. +.+                ...+..+..+|...|++++|.+.|++.++..
T Consensus        83 ~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            7777777777777777642 111                2566667777777777777777777777643

>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=98.73  E-value=9.4e-06  Score=73.01  Aligned_cols=222  Identities=12%  Similarity=0.018  Sum_probs=146.8

Q ss_pred             cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc-C-ChHH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNG-DISIAYTLFNKMFERGVMPDVESYRILMQGLCRK-S-QVNR  254 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-~-~~~~  254 (470)
                      ..+..++|++++++++..... +..+|+.--..+...| .++++++.++.+.....+ +..+|+.-...+... + ++++
T Consensus        66 ~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~  143 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVS  143 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHH
T ss_pred             hCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHH
Confidence            445567788888888876644 6777888777777778 599999999999988766 788888877777776 7 8899


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC-----
Q 012126          255 AVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLR--------EAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGR-----  321 (470)
Q Consensus       255 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--------~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~-----  321 (470)
                      ++++++.+.+...+ |..+|+.-.-++.+.|.++        ++++.++++.+.. .-|...|+.....+.+.++     
T Consensus       144 EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          144 EIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccch
Confidence            99999999987665 7777776555555555544        7888888887764 3367777777777766665     


Q ss_pred             --HhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCCh--------------------HHHHHHHHHHHHCC-----CCC
Q 012126          322 --AIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMF--------------------DVAKKYMQLMISKG-----FSP  374 (470)
Q Consensus       322 --~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~--------------------~~a~~~~~~~~~~~-----~~~  374 (470)
                        ++++++.++++.... +-|...|+.+-..+.+.|+.                    ........++...+     -.+
T Consensus       222 ~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  300 (349)
T 3q7a_A          222 RSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLP  300 (349)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSC
T ss_pred             HHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCC
Confidence              567777777776643 23566666655555555443                    11112211221111     023


Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          375 HFSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       375 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      .......+++.|...|+.++|.++++.+.+
T Consensus       301 s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          301 VPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            455555666666666666666666666653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.70  E-value=2.5e-06  Score=76.12  Aligned_cols=163  Identities=9%  Similarity=0.009  Sum_probs=91.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCC---CCC--HHHHHH
Q 012126          277 LLNSLCRKKKLREAYKLLCRMKVKGCNPD-----IVHYNTVVLGFCREGRAIDACKVLEDMPSNGC---LPN--LVSYRT  346 (470)
Q Consensus       277 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~p~--~~~~~~  346 (470)
                      .+..+...|++++|.+.+.+..+.....+     ...+..+...+...|++++|+..+++..+...   .+.  ..+|+.
T Consensus        81 ~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 2qfc_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHH
Confidence            34445555556655555555444311100     01122344445566677777776666554211   111  335666


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHH---C-CCCC--CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC----CCC-CHHHHH
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMIS---K-GFSP--HFSVSHALIKGFCNVGKVDEACGVLEELLKAG----EAP-HEDTWV  415 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~---~-~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~p-~~~~~~  415 (470)
                      +...|...|++++|...+++..+   . +..+  ...++..+...|...|++++|.+.+++.++..    ... -..+|.
T Consensus       161 lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~  240 (293)
T 2qfc_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            66777777777777777776652   1 1111  11466677777777777777777777765421    111 145667


Q ss_pred             HHHHHHHcCCcHHHH-HHHHHHHHH
Q 012126          416 MIVPQICAGEEMEKL-GEVLNEIVK  439 (470)
Q Consensus       416 ~l~~~~~~~g~~~~a-~~~~~~m~~  439 (470)
                      .+..+|.+.|++++| ...+++.+.
T Consensus       241 ~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            777777777777777 666666653

>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=98.70  E-value=1.5e-06  Score=73.25  Aligned_cols=127  Identities=11%  Similarity=-0.085  Sum_probs=81.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 012126          204 YNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR  283 (470)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  283 (470)
                      +..+...+...|++++|...|++..    .|+...+..+..+|...|++++|++.|++..+.... +...+..+..+|..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHH
Confidence            4455556666777777777776553    346666777777777777777777777776665432 55666667777777


Q ss_pred             cCCHHHHHHHHHHHHHcCCC--------------C-CHHHHHHHHHHHHhcCCHhHHHHHHHhchhC
Q 012126          284 KKKLREAYKLLCRMKVKGCN--------------P-DIVHYNTVVLGFCREGRAIDACKVLEDMPSN  335 (470)
Q Consensus       284 ~~~~~~a~~~~~~m~~~~~~--------------~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  335 (470)
                      .|++++|...|++..+..-.              | ....+..+..+|.+.|++++|...|+...+.
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            77777777777776654211              1 1255666666777777777777777776664

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.67  E-value=5.3e-06  Score=73.98  Aligned_cols=167  Identities=7%  Similarity=-0.020  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCH-----hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---CCC--HH
Q 012126          238 SYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDT-----LSYTTLLNSLCRKKKLREAYKLLCRMKVKGC---NPD--IV  307 (470)
Q Consensus       238 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~---~~~--~~  307 (470)
                      .+...+..+...|++++|++.+.+..+.....+.     ..+..+...+...|++++|...+++..+...   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            4444566677777788887777776664322111     1233355556677788888888887764311   111  34


Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHhchhC-CCCCC-----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-CH
Q 012126          308 HYNTVVLGFCREGRAIDACKVLEDMPSN-GCLPN-----LVSYRTLVGGLCDQGMFDVAKKYMQLMISK----GFSP-HF  376 (470)
Q Consensus       308 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~  376 (470)
                      +|+.+...|...|++++|+..+++..+. ...|+     ..++..+...|...|++++|...+++.++.    +... -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7777888888888888888888877621 00122     257777888888999999999998887653    1111 15


Q ss_pred             HHHHHHHHHHHccCCHHHH-HHHHHHHHH
Q 012126          377 SVSHALIKGFCNVGKVDEA-CGVLEELLK  404 (470)
Q Consensus       377 ~~~~~li~~~~~~g~~~~a-~~~~~~~~~  404 (470)
                      .+|..+..+|.+.|++++| ...+++...
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            6788888899999999999 777777643

>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=98.63  E-value=1.7e-06  Score=69.61  Aligned_cols=128  Identities=11%  Similarity=-0.057  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSL  281 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  281 (470)
                      ..+..+...+...|++++|...|++..+.... +..++..+..++...|++++|++.+++..+.... +...+..+..++
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHH
Confidence            34555666666677777777777766655332 4566666666666667777777766666655332 455566666666


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHH--HHHHHHHhcCCHhHHHHHHHhc
Q 012126          282 CRKKKLREAYKLLCRMKVKGCNPDIVHYN--TVVLGFCREGRAIDACKVLEDM  332 (470)
Q Consensus       282 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~li~~~~~~~~~~~a~~~~~~m  332 (470)
                      ...|++++|...+++..+.. +.+...+.  ..+..+...|++++|+..+...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            66666666666666665542 11233332  2222344556666666555543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.63  E-value=7.2e-05  Score=71.73  Aligned_cols=317  Identities=7%  Similarity=-0.086  Sum_probs=190.0

Q ss_pred             CCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC-chhHHHHHHHHHh-CCCcc-CHHHHHHHHHHHHh---cCCCh
Q 012126          109 KYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNL-PDRALKTFRSMLE-FNCKP-LPKQLNRILELLVT---HRNYL  182 (470)
Q Consensus       109 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~-~~~~p-~~~~~~~ll~~~~~---~~~~~  182 (470)
                      ++++.+..+|++....-  |+..+|..-+....+.+. .+....+|+..+. .|..| +...|...+..+..   ..+..
T Consensus        28 ~~~e~~~~iferal~~~--ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~  105 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKKS--YNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRI  105 (493)
T ss_dssp             TCHHHHHHHHHHHSTTC--CCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHH
T ss_pred             CCHHHHHHHHHHHhccC--CCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHH
Confidence            88999999999998853  599999998888777763 4667788888765 34333 55666666655421   12347


Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHH-------------hcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 012126          183 RPAFDLFKSAHKHGVLPNTKSYNIMMRAFC-------------FNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRK  249 (470)
Q Consensus       183 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-------------~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  249 (470)
                      +.+..+|++.+.....--...|......-.             ..+.+..|..+++.+...-...+...|...+..-...
T Consensus       106 ~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~  185 (493)
T 2uy1_A          106 EKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMEN  185 (493)
T ss_dssp             HHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcC
Confidence            789999999987432211223332222111             1123334454554443210011334555544432221


Q ss_pred             --CC-----hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 012126          250 --SQ-----VNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRA  322 (470)
Q Consensus       250 --~~-----~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  322 (470)
                        +-     .+.+..+|++++..... +...|-..+..+.+.|+.+.|..++++....  +.+...|.    .|......
T Consensus       186 ~~~~~~~~~~~Rv~~~ye~al~~~p~-~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~  258 (493)
T 2uy1_A          186 GMKLGGRPHESRMHFIHNYILDSFYY-AEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDE  258 (493)
T ss_dssp             TTCCCHHHHHHHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTC
T ss_pred             CccCcchhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcch
Confidence              11     34567889998876433 5778888888888999999999999999887  33333332    23322222


Q ss_pred             hHHH-HHHHhchhCC-----CCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-cCCH
Q 012126          323 IDAC-KVLEDMPSNG-----CLP---NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCN-VGKV  392 (470)
Q Consensus       323 ~~a~-~~~~~m~~~~-----~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~  392 (470)
                      ++.. .+.+......     ..+   ....|...+....+.++.+.|..+|+.+ +.. ..+..+|......-.. .++.
T Consensus       259 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~  336 (493)
T 2uy1_A          259 EAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSR  336 (493)
T ss_dssp             THHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCS
T ss_pred             hHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCCh
Confidence            2221 1222111000     001   1245666666666788899999999999 321 2344455433322222 3369


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHH
Q 012126          393 DEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEI  437 (470)
Q Consensus       393 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m  437 (470)
                      +.|..+|+..++.. .-+...|...++...+.|+.+.|..+|+.+
T Consensus       337 ~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          337 ATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999998753 234566777788778889999999888876

>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=98.63  E-value=1.8e-06  Score=69.48  Aligned_cols=130  Identities=12%  Similarity=-0.006  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 012126          307 VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGF  386 (470)
Q Consensus       307 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  386 (470)
                      ..+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+..++
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            445666677777888888888888776643 2356777777888888888888888888887753 44567788888888


Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHH--HHHHHcCCcHHHHHHHHHHHHH
Q 012126          387 CNVGKVDEACGVLEELLKAGEAPHEDTWVMI--VPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       387 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l--~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      ...|++++|...|++..+... .+...+..+  +..+...|++++|.+.+.+...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            888899999998888877542 244555333  3336778889999888887754

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.62  E-value=3.5e-06  Score=73.23  Aligned_cols=196  Identities=11%  Similarity=0.000  Sum_probs=121.8

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHHHHHH-------HHHHHHcCChHHHHHHHHHHHhCCCCCC---------------
Q 012126          213 FNGDISIAYTLFNKMFERGVMPDVESYRIL-------MQGLCRKSQVNRAVDLLEDMLNKGFVPD---------------  270 (470)
Q Consensus       213 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l-------l~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------  270 (470)
                      ..++...|.+.|.+..+..+. ....|..+       ...+...+...+++..+.....  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            467778888888887776544 56666665       3444454445555544444333  1211               


Q ss_pred             -------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCC--H
Q 012126          271 -------TLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN--L  341 (470)
Q Consensus       271 -------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~  341 (470)
                             ....-.+..++...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1122334566677788888888888776643  433355555567778888888888887655431 111  2


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 012126          342 VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH--FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVM  416 (470)
Q Consensus       342 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  416 (470)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++....  |+...+..
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~--P~~~~~~a  246 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH--PEPKVAAA  246 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--CCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHHHHH
Confidence            3566677778888888888888888775332243  3355566667778888888888888887744  55333333

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.59  E-value=2.3e-06  Score=65.48  Aligned_cols=97  Identities=13%  Similarity=0.075  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSL  281 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  281 (470)
                      ..+......|.+.|++++|++.|++.++.... +..+|..+..+|.+.|++++|++.+++.++.+.. +...|..+..+|
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHHHHHHHH
Confidence            34555666666666666666666666665433 5566666666666666666666666666665433 455666666666


Q ss_pred             HhcCCHHHHHHHHHHHHHc
Q 012126          282 CRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       282 ~~~~~~~~a~~~~~~m~~~  300 (470)
                      ...|++++|.+.|++..+.
T Consensus        92 ~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH
Confidence            6666666666666666654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.59  E-value=3.4e-06  Score=63.87  Aligned_cols=98  Identities=14%  Similarity=0.200  Sum_probs=60.4

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNS  280 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  280 (470)
                      ...+..+...+...|++++|.++|+++.+... .+..++..+...+...|++++|+..++++.+.... +..++..+..+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHH
Confidence            44556666666666777777777766665532 24556666666666666666666666666654322 45555666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHc
Q 012126          281 LCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       281 ~~~~~~~~~a~~~~~~m~~~  300 (470)
                      +...|++++|...++++.+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHh
Confidence            66666666666666666554

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.57  E-value=7.8e-07  Score=74.37  Aligned_cols=84  Identities=7%  Similarity=-0.059  Sum_probs=35.0

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC----CCC-CCHhhHHHHHHHHHhcCCH
Q 012126          213 FNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK----GFV-PDTLSYTTLLNSLCRKKKL  287 (470)
Q Consensus       213 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~ll~~~~~~~~~  287 (470)
                      ..|++++|.++++.+.. .......++..+...+...|++++|+..+++..+.    +.. ....++..+...|...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            34555555553333222 11123444445555555555555555555544431    111 1123344444444455555


Q ss_pred             HHHHHHHHHH
Q 012126          288 REAYKLLCRM  297 (470)
Q Consensus       288 ~~a~~~~~~m  297 (470)
                      ++|...+++.
T Consensus        83 ~~A~~~~~~a   92 (203)
T 3gw4_A           83 DAARRCFLEE   92 (203)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555544443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.57  E-value=5.6e-07  Score=75.28  Aligned_cols=97  Identities=8%  Similarity=-0.064  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC--CHHHHHHHHHHHHccCCHHHHHHHHHHHHHC----CCC-CCH
Q 012126          343 SYRTLVGGLCDQGMFDVAKKYMQLMISK----GFSP--HFSVSHALIKGFCNVGKVDEACGVLEELLKA----GEA-PHE  411 (470)
Q Consensus       343 ~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-p~~  411 (470)
                      .+..+...+...|++++|...+++..+.    +-.+  ....+..+...+...|++++|...+++..+.    +.. ...
T Consensus        68 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  147 (203)
T 3gw4_A           68 ALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIA  147 (203)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHH
Confidence            3444444445555555555555444331    1010  1223444455555555555555555554321    100 001


Q ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          412 DTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       412 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      .++..+...+...|++++|.+.+++..+
T Consensus       148 ~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          148 CAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            1234455555556666666655555544

>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=98.56  E-value=4.3e-07  Score=80.58  Aligned_cols=99  Identities=11%  Similarity=-0.031  Sum_probs=70.7

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLN  279 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  279 (470)
                      +...+..+...+...|++++|...|++..+.... +...|..+..+|.+.|++++|+..+++..+.... +...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            4556666777777778888888877777766433 6667777777777777888887777777765433 5666777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 012126          280 SLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      +|...|++++|...|++..+.
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            777777777777777776554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.55  E-value=3.2e-06  Score=64.62  Aligned_cols=118  Identities=9%  Similarity=-0.032  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNS  280 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  280 (470)
                      ...+..+...+...|++++|...|++....... +...+..+..++...|++++|++.+++..+.... +...+..+..+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELNPA-NAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPA-YSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCcc-CHHHHHHHHHH
Confidence            445556666666667777777777666655322 4556666666666666666666666666654322 45556666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 012126          281 LCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGR  321 (470)
Q Consensus       281 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  321 (470)
                      +...|++++|...+++..+.. +.+...+..+..++.+.|+
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            666666666666666665542 2244455555555555444

>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=98.54  E-value=1.2e-06  Score=71.61  Aligned_cols=118  Identities=10%  Similarity=0.134  Sum_probs=67.6

Q ss_pred             CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHHcCCh--HHHH
Q 012126          180 NYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQG-LCRKSQV--NRAV  256 (470)
Q Consensus       180 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~~~~~~~--~~a~  256 (470)
                      |++++|...+++..+... .+...|..+...|...|++++|...|++..+.... +...+..+..+ +...|++  ++|+
T Consensus        24 ~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~~~~A~  101 (177)
T 2e2e_A           24 QNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHMTAQTR  101 (177)
T ss_dssp             ---CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcchHHHH
Confidence            345555555555554432 25556666666666666666666666666554322 45555555555 5566665  6666


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          257 DLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       257 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      ..++++.+.... +...+..+..+|...|++++|...|++..+.
T Consensus       102 ~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          102 AMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            666666655332 4455555666666666666666666666554

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.54  E-value=2.4e-06  Score=65.36  Aligned_cols=95  Identities=13%  Similarity=0.029  Sum_probs=57.7

Q ss_pred             CCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHH
Q 012126          179 RNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDL  258 (470)
Q Consensus       179 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  258 (470)
                      .|++++|++.|++.++... .+...|..+..+|.+.|++++|++.|++.++.+.. +...|..+..++...|++++|++.
T Consensus        26 ~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~  103 (126)
T 4gco_A           26 KGDYPTAMRHYNEAVKRDP-ENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYIRKAACLVAMREWSKAQRA  103 (126)
T ss_dssp             TTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCC-CCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHHHHHHHHHHCCCHHHHHHH
Confidence            3334444444444444332 25666677777777777777777777777665433 566677777777777777777777


Q ss_pred             HHHHHhCCCCCCHhhHHH
Q 012126          259 LEDMLNKGFVPDTLSYTT  276 (470)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~  276 (470)
                      |++..+..+. +......
T Consensus       104 ~~~al~l~P~-~~~a~~~  120 (126)
T 4gco_A          104 YEDALQVDPS-NEEAREG  120 (126)
T ss_dssp             HHHHHHHCTT-CHHHHHH
T ss_pred             HHHHHHHCcC-CHHHHHH
Confidence            7777665433 3434333

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.54  E-value=8.7e-07  Score=70.12  Aligned_cols=96  Identities=7%  Similarity=0.017  Sum_probs=55.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          343 SYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQIC  422 (470)
Q Consensus       343 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  422 (470)
                      .+..+...+.+.|++++|...|+++++.. +.+...|..+..+|...|++++|...|++.++... -+...|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P-~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK-NDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-SCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHH
Confidence            44445555556666666666666665542 33455555666666666666666666666655432 13455556666666


Q ss_pred             cCCcHHHHHHHHHHHHHc
Q 012126          423 AGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       423 ~~g~~~~a~~~~~~m~~~  440 (470)
                      ..|++++|.+.|++.++.
T Consensus       116 ~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            666666666666666543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.53  E-value=3.1e-06  Score=73.55  Aligned_cols=189  Identities=11%  Similarity=-0.074  Sum_probs=112.4

Q ss_pred             cCCChHHHHHHHHHhhcCCCCCCCHHHHHHH-------HHHHHccCCchHHHHHHHHHhh------------CCC-----
Q 012126           71 SQSDPLLAKEIFDYASRQPNFRHSNSTYLIL-------ILKLGRAKYFSLIDDILITLKS------------EHY-----  126 (470)
Q Consensus        71 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-------l~~~~~~~~~~~a~~~~~~~~~------------~~~-----  126 (470)
                      ..+|+..|++.|..+....  +-....|..+       ...+.+.++..++...+..-..            .|.     
T Consensus        18 ~~~d~~~A~~~F~~a~~~d--P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD--ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhC--hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccc
Confidence            5799999999999998765  4567778777       4666666666666555555443            110     


Q ss_pred             ---CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCC--CH
Q 012126          127 ---PVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLP--NT  201 (470)
Q Consensus       127 ---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~  201 (470)
                         .....+.......+...|++++|.++|+.+...+  |+.. ....+..++...+++++|+..|+...+.. .|  ..
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~-~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHL-VAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHH-HHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchH-HHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence               0013344556677788888888888888776533  4333 33333334445556677777666443321 11  02


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPD--VESYRILMQGLCRKSQVNRAVDLLEDMLNK  265 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  265 (470)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            2455566666666666666666666653322132  234445555666666666666666666655

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.53  E-value=2.8e-06  Score=65.29  Aligned_cols=117  Identities=11%  Similarity=-0.012  Sum_probs=69.2

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLN  279 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  279 (470)
                      +...+..+...+...|++++|...|++..+.... +...+..+..++...|++++|++.+++..+.... +...+..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHHHH
Confidence            4555666666666777777777777766655322 5566666666666666777777766666654332 4556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 012126          280 SLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCRE  319 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  319 (470)
                      ++.+.|++++|...|++..+.. +.+...+..+..++.+.
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHh
Confidence            6666666666666666665542 11233444444444433

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.53  E-value=4.1e-06  Score=63.40  Aligned_cols=97  Identities=16%  Similarity=0.176  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 012126          307 VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGF  386 (470)
Q Consensus       307 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  386 (470)
                      ..+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|..+++++.+.. +.+..++..+...|
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            344444445555555555555555544431 1234444455555555555555555555555432 22344555555555


Q ss_pred             HccCCHHHHHHHHHHHHHC
Q 012126          387 CNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       387 ~~~g~~~~a~~~~~~~~~~  405 (470)
                      ...|++++|...++++.+.
T Consensus        88 ~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHh
Confidence            5555555555555555543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.53  E-value=1.6e-06  Score=68.60  Aligned_cols=98  Identities=17%  Similarity=0.024  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNS  280 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  280 (470)
                      ...+..+...+.+.|++++|...|++..+..+. +...|..+..+|...|++++|+..|++..+..+. +...|..+..+
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~  113 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHH
Confidence            445566666666777777777777777666433 5666666777777777777777777776665443 45566666667


Q ss_pred             HHhcCCHHHHHHHHHHHHHc
Q 012126          281 LCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       281 ~~~~~~~~~a~~~~~~m~~~  300 (470)
                      |.+.|++++|...|++..+.
T Consensus       114 ~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            77777777777777776665

>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=98.51  E-value=8e-07  Score=72.66  Aligned_cols=121  Identities=6%  Similarity=0.023  Sum_probs=86.4

Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH-HHhcCCH--H
Q 012126          212 CFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNS-LCRKKKL--R  288 (470)
Q Consensus       212 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~--~  288 (470)
                      ...|++++|...+++..+.... +...+..+..+|...|++++|+..|++..+.... +...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcchH
Confidence            3567788888888887776433 6677888888888888888888888887776443 56667777777 6677887  8


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhC
Q 012126          289 EAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSN  335 (470)
Q Consensus       289 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  335 (470)
                      +|...+++..+.. +.+...+..+...|...|++++|...|+++.+.
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            8888888877663 234666777777888888888888888887764

>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=98.51  E-value=4.8e-06  Score=73.72  Aligned_cols=194  Identities=7%  Similarity=-0.045  Sum_probs=134.3

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 012126          235 DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVL  314 (470)
Q Consensus       235 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~  314 (470)
                      +...+..+...+...|++++|+..|++..+.... +...+..+..+|.+.|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            5667888889999999999999999999887544 78889999999999999999999999998763 345778889999


Q ss_pred             HHHhcCCHhHHHHHHHhchhCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 012126          315 GFCREGRAIDACKVLEDMPSNGCLPNL-VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVD  393 (470)
Q Consensus       315 ~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  393 (470)
                      +|...|++++|...|++..+.+  |+. ..+...+....+   ..++. -+..........+..+...+...  ..|+.+
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~~i~~~l~~l--~~~~~~  152 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALR---IAKKK-RWNSIEERRIHQESELHSYLTRL--IAAERE  152 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHH---HHHHH-HHHHHHHTCCCCCCHHHHHHHHH--HHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHH---HHHHH-HHHHHHHHHHhhhHHHHHHHHHH--HHHHHH
Confidence            9999999999999999877642  211 011111111111   11111 12223333344555554444332  268999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHH-HHHHHHHHcC-CcHHHHHHHHHHHHHc
Q 012126          394 EACGVLEELLKAGEAPHEDTW-VMIVPQICAG-EEMEKLGEVLNEIVKV  440 (470)
Q Consensus       394 ~a~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~-g~~~~a~~~~~~m~~~  440 (470)
                      +|.+.+++..+.  .|+.... ..+...+.+. +.++++.++|.++.+.
T Consensus       153 ~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          153 RELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999999888774  4555433 3333334444 6788999999888653

>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=98.49  E-value=2.9e-06  Score=77.32  Aligned_cols=145  Identities=9%  Similarity=-0.070  Sum_probs=70.7

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHH
Q 012126          270 DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVG  349 (470)
Q Consensus       270 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  349 (470)
                      +...+..+...|.+.|++++|...|++..+..  |+...+           ..+.+..+- .       .....|..+..
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~-----------~~~~~~~~~-~-------~~~~~~~nla~  204 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESSF-----------SNEEAQKAQ-A-------LRLASHLNLAM  204 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCCC-----------CSHHHHHHH-H-------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--hccccC-----------ChHHHHHHH-H-------HHHHHHHHHHH
Confidence            34556666666666777777777776666542  221000           000000000 0       00234455555


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHH
Q 012126          350 GLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEK  429 (470)
Q Consensus       350 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  429 (470)
                      ++.+.|++++|+..++++++.. +.+...|..+..+|...|++++|...|++.++... -+...+..+..++.+.|+.++
T Consensus       205 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~  282 (336)
T 1p5q_A          205 CHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRIRRQLA  282 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555542 23445555555555555666666665555555321 134455555555555555555


Q ss_pred             H-HHHHHHH
Q 012126          430 L-GEVLNEI  437 (470)
Q Consensus       430 a-~~~~~~m  437 (470)
                      + ...++.|
T Consensus       283 a~~~~~~~~  291 (336)
T 1p5q_A          283 REKKLYANM  291 (336)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            5 2334444

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.48  E-value=3.4e-06  Score=64.48  Aligned_cols=118  Identities=11%  Similarity=-0.052  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 012126          306 IVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKG  385 (470)
Q Consensus       306 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  385 (470)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            3445555555666666666666666655532 2245555566666666666666666666666542 2345566666666


Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCc
Q 012126          386 FCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEE  426 (470)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  426 (470)
                      +...|++++|...|++..+... .+...+..+..++...|+
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDP-DNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHhc
Confidence            6666666666666666665431 244555555555555443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.48  E-value=3.1e-06  Score=65.06  Aligned_cols=98  Identities=11%  Similarity=0.000  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 012126          306 IVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKG  385 (470)
Q Consensus       306 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  385 (470)
                      ...+..+...+.+.|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+..+
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            3445555555555566666666655555432 1234455555555555666666666666555542 2244555555555


Q ss_pred             HHccCCHHHHHHHHHHHHHC
Q 012126          386 FCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~  405 (470)
                      +...|++++|.+.|++..+.
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHh
Confidence            66666666666666655543

>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=98.48  E-value=9.9e-07  Score=69.74  Aligned_cols=99  Identities=12%  Similarity=-0.073  Sum_probs=71.6

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLN  279 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  279 (470)
                      +...+..+...+...|++++|...|++....... +...|..+..+|...|++++|+..|++....... +...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHH
Confidence            4455666777777788888888888777766433 6677777777777888888888888777766543 5566677777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 012126          280 SLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      +|...|++++|...|++..+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            777788888888877777654

>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=98.45  E-value=2.6e-06  Score=66.10  Aligned_cols=99  Identities=7%  Similarity=-0.044  Sum_probs=62.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          340 NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVP  419 (470)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  419 (470)
                      +...+..+...+...|++++|...++..++.. +.+...+..+..++...|++++|...+++.++.+. .+...|..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-hhHHHHHHHHH
Confidence            45556666666666666666666666666543 33455666666666667777777777766666432 24556666666


Q ss_pred             HHHcCCcHHHHHHHHHHHHHc
Q 012126          420 QICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       420 ~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      ++...|++++|.+.++++++.
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHH
Confidence            667777777777777766654

>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=98.44  E-value=4.7e-06  Score=75.88  Aligned_cols=124  Identities=8%  Similarity=-0.044  Sum_probs=74.4

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--------------HHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPD--------------VESYRILMQGLCRKSQVNRAVDLLEDMLNK  265 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  265 (470)
                      +...+..+...|.+.|++++|...|++..+......              ..+|..+..+|.+.|++++|+..+++.++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345566666777777777777777777766543321              355666666666666666666666666655


Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHH
Q 012126          266 GFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDA  325 (470)
Q Consensus       266 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a  325 (470)
                      ... +..++..+..+|...|++++|...|++..+.. +.+...+..+..++.+.|+.++|
T Consensus       226 ~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          226 DSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             CTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            433 45556666666666666666666666665542 22345555555556666665555

>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=98.44  E-value=2.2e-06  Score=67.75  Aligned_cols=96  Identities=13%  Similarity=0.021  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 012126          307 VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGF  386 (470)
Q Consensus       307 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  386 (470)
                      ..+..+...+.+.|++++|+..|+...... +.+...|..+..+|...|++++|...+++.++.. +.+...+..+..+|
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHH
Confidence            334444455555555555555555554432 1234445555555555555555555555555432 22334445555555


Q ss_pred             HccCCHHHHHHHHHHHHH
Q 012126          387 CNVGKVDEACGVLEELLK  404 (470)
Q Consensus       387 ~~~g~~~~a~~~~~~~~~  404 (470)
                      ...|++++|.+.|++.++
T Consensus       100 ~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            555555555555555544

>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=98.42  E-value=0.00019  Score=64.21  Aligned_cols=137  Identities=6%  Similarity=-0.036  Sum_probs=81.0

Q ss_pred             cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC----------hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGD----------ISIAYTLFNKMFERGVMPDVESYRILMQGLC  247 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  247 (470)
                      .+...++|+.+++.++..++. +..+|+.=-..+...+.          +++++.+++.+....++ +..+|+.-...+.
T Consensus        42 ~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~  119 (331)
T 3dss_A           42 AGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLS  119 (331)
T ss_dssp             TTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHh
Confidence            444455788888888776543 55666654333333332          45666666666665544 6666666555555


Q ss_pred             HcC--ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 012126          248 RKS--QVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKK-LREAYKLLCRMKVKGCNPDIVHYNTVVLGFCR  318 (470)
Q Consensus       248 ~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  318 (470)
                      ..+  +++++++++..+.+.... |..+|+.-..++...|. ++++++.++.+.+.. +-|...|+.....+..
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~  191 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQ  191 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHH
T ss_pred             ccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
Confidence            655  366777777777666544 66666665555566666 466666666666653 2355555555444443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.41  E-value=4.4e-06  Score=67.24  Aligned_cols=99  Identities=10%  Similarity=-0.035  Sum_probs=70.9

Q ss_pred             CHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          305 DIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIK  384 (470)
Q Consensus       305 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  384 (470)
                      +...+..+...+.+.|++++|+..|++..+.. +-+...|..+..+|...|++++|+..+++.++.. +.+...|..+..
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            34566667777777888888888887777643 2256677777777777788888888887777753 335667777777


Q ss_pred             HHHccCCHHHHHHHHHHHHHC
Q 012126          385 GFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       385 ~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      +|...|++++|.+.|++.++.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            777778888888877777664

>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=98.40  E-value=1.3e-05  Score=61.17  Aligned_cols=97  Identities=14%  Similarity=0.130  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSL  281 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  281 (470)
                      ..|..+...+.+.|++++|...|++..+.... +...|..+..++.+.|++++|+..+++..+.... +...+..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHH
Confidence            34555556666666666666666666655432 5566666666666666666666666666655433 455566666666


Q ss_pred             HhcCCHHHHHHHHHHHHHc
Q 012126          282 CRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       282 ~~~~~~~~a~~~~~~m~~~  300 (470)
                      ...|++++|...|++..+.
T Consensus        83 ~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           83 IAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHh
Confidence            6666666666666665543

>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=98.39  E-value=0.00033  Score=62.65  Aligned_cols=127  Identities=7%  Similarity=0.050  Sum_probs=82.9

Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC-hHHHHHH
Q 012126          182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNG--DISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQ-VNRAVDL  258 (470)
Q Consensus       182 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~~~  258 (470)
                      +++++.+++.+....++ +..+|+.-.-.+...|  .+++++.+++++.+.... |..+|+.-.-.+...|. ++++++.
T Consensus        90 l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            45667777777765543 6777776666666666  377888888888877655 67777766666667777 4788888


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhc--------------CCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 012126          259 LEDMLNKGFVPDTLSYTTLLNSLCRK--------------KKLREAYKLLCRMKVKGCNPDIVHYNTV  312 (470)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~ll~~~~~~--------------~~~~~a~~~~~~m~~~~~~~~~~~~~~l  312 (470)
                      +..+.+..+. |..+|+.....+.+.              +.++++++.+....... +-|...|+-+
T Consensus       168 ~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~  233 (331)
T 3dss_A          168 TDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYH  233 (331)
T ss_dssp             HHHHHHHCSC-CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             HHHHHHHCCC-CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            8888777655 677776665555544              33566666666665542 2344555433

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.38  E-value=2.5e-06  Score=66.85  Aligned_cols=94  Identities=10%  Similarity=-0.119  Sum_probs=48.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 012126          344 YRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICA  423 (470)
Q Consensus       344 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  423 (470)
                      +..+...+.+.|++++|...|+.+.+.. +.+...|..+..+|...|++++|...|++.++.+. .+...|..+..+|..
T Consensus        21 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           21 LYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI-NEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHH
Confidence            3334444555555555555555555432 23444555555555555555555555555554331 233445555555555


Q ss_pred             CCcHHHHHHHHHHHHH
Q 012126          424 GEEMEKLGEVLNEIVK  439 (470)
Q Consensus       424 ~g~~~~a~~~~~~m~~  439 (470)
                      .|++++|.+.++++++
T Consensus        99 ~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           99 LGDLDGAESGFYSARA  114 (142)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555553

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.37  E-value=1e-06  Score=73.60  Aligned_cols=97  Identities=12%  Similarity=0.037  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC---------------HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC
Q 012126          203 SYNIMMRAFCFNGDISIAYTLFNKMFERGVMPD---------------VESYRILMQGLCRKSQVNRAVDLLEDMLNKGF  267 (470)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  267 (470)
                      .+..+...+...|++++|...|++..+....-.               ...+..+..+|...|++++|+..+++..+...
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p  119 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDK  119 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc
Confidence            344555555566666666666666555321100               13444444445555555555555555444322


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          268 VPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       268 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      . +...+..+..+|...|++++|...|++..+.
T Consensus       120 ~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A          120 N-NVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             T-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             c-cHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            2 3444444444455555555555555544443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.35  E-value=7.7e-06  Score=60.50  Aligned_cols=99  Identities=10%  Similarity=-0.004  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC--CHHHHHHHH
Q 012126          341 LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAP--HEDTWVMIV  418 (470)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p--~~~~~~~l~  418 (470)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|.+.+++.++.. +.  +...|..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~   83 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKA   83 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHH
Confidence            3455566677777788888888887777653 3456677777777888888888888888877753 22  466777777


Q ss_pred             HHHHcC-CcHHHHHHHHHHHHHcc
Q 012126          419 PQICAG-EEMEKLGEVLNEIVKVE  441 (470)
Q Consensus       419 ~~~~~~-g~~~~a~~~~~~m~~~~  441 (470)
                      .++... |++++|.+.++++.+..
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhcc
Confidence            888888 88888888888887543

>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=98.35  E-value=2.8e-05  Score=57.99  Aligned_cols=97  Identities=10%  Similarity=-0.033  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSL  281 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  281 (470)
                      ..+..+...+...|++++|...|++....... +...+..+..++...|++++|...+++..+.... +...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHHHH
Confidence            34455555555566666666666655554322 4455555555555556666666555555544322 344455555555


Q ss_pred             HhcCCHHHHHHHHHHHHHc
Q 012126          282 CRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       282 ~~~~~~~~a~~~~~~m~~~  300 (470)
                      ...|++++|...+++..+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            5555555555555555543

>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=98.35  E-value=1.2e-05  Score=61.42  Aligned_cols=97  Identities=14%  Similarity=0.103  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC--CC----HhhHH
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV--PD----TLSYT  275 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~  275 (470)
                      ..+..+...+.+.|++++|++.|++.++..+. +...|..+..+|...|++++|++.+++.++....  .+    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            34455566666666666666666666655432 4555666666666666666666666665543211  01    12344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Q 012126          276 TLLNSLCRKKKLREAYKLLCRMKV  299 (470)
Q Consensus       276 ~ll~~~~~~~~~~~a~~~~~~m~~  299 (470)
                      .+..++...|++++|++.|++...
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh
Confidence            445555555555555555555544

>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=98.34  E-value=1.1e-05  Score=61.52  Aligned_cols=94  Identities=12%  Similarity=0.005  Sum_probs=43.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 012126          344 YRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICA  423 (470)
Q Consensus       344 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  423 (470)
                      +..+...+.+.|++++|...|++.++.. +.+...|..+..+|.+.|++++|...+++.++.+. .+...|..+..++..
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~   84 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKATAQIA   84 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHH
Confidence            3334444444455555555554444432 22344444444555555555555555555444321 134444444555555


Q ss_pred             CCcHHHHHHHHHHHHH
Q 012126          424 GEEMEKLGEVLNEIVK  439 (470)
Q Consensus       424 ~g~~~~a~~~~~~m~~  439 (470)
                      .|++++|.+.+++.++
T Consensus        85 ~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           85 VKEYASALETLDAART  100 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             HhCHHHHHHHHHHHHH
Confidence            5555555555555443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.33  E-value=4.1e-05  Score=72.28  Aligned_cols=196  Identities=7%  Similarity=-0.089  Sum_probs=98.5

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCC----------------HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC-CCCH
Q 012126          209 RAFCFNGDISIAYTLFNKMFERGVMPD----------------VESYRILMQGLCRKSQVNRAVDLLEDMLNKGF-VPDT  271 (470)
Q Consensus       209 ~~~~~~g~~~~a~~~~~~m~~~~~~p~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~  271 (470)
                      +.+.+.|++++|.+.|.++.+......                ...+..+...|...|++++|.+.+..+...-. .++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            445667777777777777766533211                01245566666667777777666666543211 1111


Q ss_pred             h----hHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCCHhHHHHHHHhchhC----CCC
Q 012126          272 L----SYTTLLNSLCRKKKLREAYKLLCRMKVK----GCNPD-IVHYNTVVLGFCREGRAIDACKVLEDMPSN----GCL  338 (470)
Q Consensus       272 ~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~  338 (470)
                      .    +.+.+-..+...|+.+.|..+++.....    +..+. ..++..+...|...|++++|..+++++...    +-.
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence            1    1122222233455666666666655331    11111 234555566666666666666666654432    111


Q ss_pred             C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          339 P-NLVSYRTLVGGLCDQGMFDVAKKYMQLMISK--GFSPH----FSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       339 p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      + ....+..++..|...|++++|..++++....  .+..+    ...+..+...+...|++++|...|.+..+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            1 1234555556666666666666666555431  11111    22344444555556666666666555544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.33  E-value=9.8e-06  Score=63.38  Aligned_cols=98  Identities=8%  Similarity=-0.114  Sum_probs=65.5

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNS  280 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  280 (470)
                      ...+..+...+...|++++|...|++....+.. +...|..+..++...|++++|+..|++....... +...+..+..+
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~   95 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHH
Confidence            344555566667777777777777777665433 5666666777777777777777777777665443 45566666777


Q ss_pred             HHhcCCHHHHHHHHHHHHHc
Q 012126          281 LCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       281 ~~~~~~~~~a~~~~~~m~~~  300 (470)
                      |...|++++|...|+...+.
T Consensus        96 ~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            77777777777777766554

>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=98.32  E-value=5.7e-06  Score=63.33  Aligned_cols=61  Identities=7%  Similarity=0.013  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          308 HYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       308 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      .+..+...+.+.|++++|+..|++..+.. +-+...|..+..+|...|++++|+..+++.++
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~   70 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVE   70 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHH
Confidence            34444555555555555555555544431 11334444445555555555555555554443

>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=98.32  E-value=3.3e-05  Score=57.54  Aligned_cols=96  Identities=15%  Similarity=-0.001  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          308 HYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFC  387 (470)
Q Consensus       308 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  387 (470)
                      .+..+...+...|++++|...++...... +.+...+..+...+...|++++|...+++..+.. +.+...+..+..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34444455555555555555555554432 1234444555555555555555555555555432 223445555555555


Q ss_pred             ccCCHHHHHHHHHHHHHC
Q 012126          388 NVGKVDEACGVLEELLKA  405 (470)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~  405 (470)
                      ..|++++|.+.+++..+.
T Consensus        84 ~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTT
T ss_pred             HHhhHHHHHHHHHHHHHc
Confidence            555555555555555543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.29  E-value=3.6e-05  Score=72.69  Aligned_cols=234  Identities=8%  Similarity=-0.035  Sum_probs=143.5

Q ss_pred             HHHHHHHHHHHcCCchhHHHHHHHHHhCC-Ccc---CHHHHHHHHHHHHhcCCChhhHHHHHHHHHH----CCCCC-CHH
Q 012126          132 LFTYLIKIYAESNLPDRALKTFRSMLEFN-CKP---LPKQLNRILELLVTHRNYLRPAFDLFKSAHK----HGVLP-NTK  202 (470)
Q Consensus       132 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~p---~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~  202 (470)
                      .+..+...|...|++++|.+.+..+...- ..+   ........+..+....|..+.+..++.....    .+..+ -..
T Consensus        57 al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  136 (434)
T 4b4t_Q           57 SILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHS  136 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHH
Confidence            45678888888888888888888765421 111   1223445566666677778888888887653    23222 256


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCC----CC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC----CCCCC--H
Q 012126          203 SYNIMMRAFCFNGDISIAYTLFNKMFERG----VM-PDVESYRILMQGLCRKSQVNRAVDLLEDMLNK----GFVPD--T  271 (470)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~  271 (470)
                      ++..+...|...|++++|..++++....-    -. ....++..++..|...|++++|..++++....    +..+.  .
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  216 (434)
T 4b4t_Q          137 LSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVA  216 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHH
Confidence            77889999999999999999999876531    11 13567888899999999999999999887642    11111  2


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCCHHHH----HHHHHHHHhcCCHhHHHHHHHhch--hCCCCCCH
Q 012126          272 LSYTTLLNSLCRKKKLREAYKLLCRMKVK----GCNPDIVHY----NTVVLGFCREGRAIDACKVLEDMP--SNGCLPNL  341 (470)
Q Consensus       272 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~----~~li~~~~~~~~~~~a~~~~~~m~--~~~~~p~~  341 (470)
                      ..+..+...+...|++++|...|.+..+.    +........    ..++.+....+..+.....+..-.  .....++.
T Consensus       217 ~~~~~~g~~~~~~~~y~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  296 (434)
T 4b4t_Q          217 ELDLMSGILHCEDKDYKTAFSYFFESFESYHNLTTHNSYEKACQVLKYMLLSKIMLNLIDDVKNILNAKYTKETYQSRGI  296 (434)
T ss_dssp             HHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHTTTSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHCSSSSTTCCCHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHhccchhHHHhHHHHHHHHHHhcchhh
Confidence            45566677778889999999888776542    211111111    111122223333444444443322  11223445


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHH
Q 012126          342 VSYRTLVGGLCDQGMFDVAKKYMQL  366 (470)
Q Consensus       342 ~~~~~li~~~~~~g~~~~a~~~~~~  366 (470)
                      ..+..++.++.. +++......+..
T Consensus       297 ~~~~~l~~~~~~-~~l~~~~~~~~~  320 (434)
T 4b4t_Q          297 DAMKAVAEAYNN-RSLLDFNTALKQ  320 (434)
T ss_dssp             HHHHHHHHHHHH-TCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHh-hhHHHHHHHHHH
Confidence            566666666643 445544444443

>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=98.29  E-value=1.1e-05  Score=61.63  Aligned_cols=98  Identities=15%  Similarity=0.150  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC--CC----HhhHH
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV--PD----TLSYT  275 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~  275 (470)
                      ..+..+...+...|++++|...|++..+... .+...+..+..++...|++++|...++++.+....  ++    ..++.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            4455566666666666666666666665532 24555666666666666666666666666543211  11    44555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          276 TLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       276 ~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      .+..++...|++++|...|++..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh
Confidence            5556666666666666666666554

>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=98.29  E-value=1.6e-05  Score=66.12  Aligned_cols=130  Identities=9%  Similarity=-0.061  Sum_probs=78.3

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHhchhCCCC-C--------------CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 012126          308 HYNTVVLGFCREGRAIDACKVLEDMPSNGCL-P--------------NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF  372 (470)
Q Consensus       308 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p--------------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  372 (470)
                      .+..+...+...|++++|+..|++..+.... |              ....+..+..+|...|++++|...+++.++.. 
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-  118 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-  118 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-
Confidence            3444455555566666666666555543111 1              02566677777788888888888888877753 


Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHH-HHHHHHHH
Q 012126          373 SPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLG-EVLNEIVK  439 (470)
Q Consensus       373 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~  439 (470)
                      +.+...+..+..+|...|++++|.+.|++.++... -+...+..+..++...++.+++. ..+..|..
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP-NNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34566777777888888888888888888776532 25566777777776666666655 44555543

>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=98.27  E-value=2.7e-05  Score=60.20  Aligned_cols=98  Identities=11%  Similarity=-0.024  Sum_probs=59.7

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLN  279 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  279 (470)
                      +...+..+...+...|++++|...|++..+.... +...|..+..++...|++++|+..+++..+.... +...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHHH
Confidence            4556666666666666666666666666655432 4556666666666666666666666666654433 4555566666


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 012126          280 SLCRKKKLREAYKLLCRMKV  299 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~  299 (470)
                      +|...|++++|...|++..+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            66666666666666666544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.26  E-value=2.7e-05  Score=62.52  Aligned_cols=99  Identities=9%  Similarity=-0.072  Sum_probs=73.4

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLN  279 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  279 (470)
                      +...+..+...+...|++++|++.|++.++.... +...|..+..+|...|++++|+..|++.++.... +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            4556677777777888888888888887776433 6677777777888888888888888877776543 5667777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 012126          280 SLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       280 ~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      +|...|++++|...|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            777888888888888777664

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.26  E-value=4.7e-05  Score=59.52  Aligned_cols=98  Identities=12%  Similarity=0.016  Sum_probs=56.0

Q ss_pred             CHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 012126          305 DIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN----LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSH  380 (470)
Q Consensus       305 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  380 (470)
                      +...+..+...+...|++++|...|++..+.  .|+    ...+..+..++...|++++|...+++..+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            3444555555556666666666666665553  233    3455555556666666666666666665542 22445555


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          381 ALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      .+..+|...|++++|...|++.++.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            5666666666666666666666553

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.23  E-value=1.5e-05  Score=60.30  Aligned_cols=94  Identities=7%  Similarity=-0.151  Sum_probs=70.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 012126          344 YRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICA  423 (470)
Q Consensus       344 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  423 (470)
                      +..+...+.+.|++++|...+++.++.. +.+...|..+..++...|++++|...|++.++... -+...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHH
Confidence            4445666777888888888888887753 34667777777888888888888888888877542 256677778888888


Q ss_pred             CCcHHHHHHHHHHHHH
Q 012126          424 GEEMEKLGEVLNEIVK  439 (470)
Q Consensus       424 ~g~~~~a~~~~~~m~~  439 (470)
                      .|++++|...++++++
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            8888888888888874

>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=98.22  E-value=1.6e-05  Score=60.70  Aligned_cols=97  Identities=12%  Similarity=0.075  Sum_probs=57.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CCC----HHHHH
Q 012126          237 ESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGC--NPD----IVHYN  310 (470)
Q Consensus       237 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~~~  310 (470)
                      ..+..+...+...|++++|+..|++..+.... +...+..+..++...|++++|...+++......  .++    ...+.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            44555666666677777777777766655322 455566666666666677666666666654311  011    44455


Q ss_pred             HHHHHHHhcCCHhHHHHHHHhchh
Q 012126          311 TVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       311 ~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      .+..++...|++++|.+.|+...+
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHH
Confidence            555556666666666666665555

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.21  E-value=9.8e-06  Score=65.00  Aligned_cols=62  Identities=18%  Similarity=0.231  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          377 SVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       377 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      .+|..+..+|.+.|++++|...+++.++.+ +.+...|..+..+|...|++++|...+++.++
T Consensus        64 ~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           64 PLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            455556666666666666666666666543 22455666666666666666666666666664

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.20  E-value=4.2e-05  Score=59.83  Aligned_cols=94  Identities=5%  Similarity=-0.148  Sum_probs=76.1

Q ss_pred             hHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCC----HHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHH
Q 012126           62 PCRVQKLIASQSDPLLAKEIFDYASRQPNFRHS----NSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLI  137 (470)
Q Consensus        62 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  137 (470)
                      ...+...+...++++.|+..|+.+....   |+    ...+..+...+...|++++|...++...... +.+...+..+.
T Consensus        31 ~~~~a~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a  106 (148)
T 2dba_A           31 LRKEGNELFKCGDYGGALAAYTQALGLD---ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRRS  106 (148)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHTSC---CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHc---ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHHH
Confidence            3445677788999999999999887653   34    5678888888889999999999998887764 55778888888


Q ss_pred             HHHHHcCCchhHHHHHHHHHhC
Q 012126          138 KIYAESNLPDRALKTFRSMLEF  159 (470)
Q Consensus       138 ~~~~~~g~~~~A~~~~~~~~~~  159 (470)
                      .+|...|++++|...|++..+.
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHc
Confidence            8999999999999999888773

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.19  E-value=1.7e-05  Score=60.05  Aligned_cols=92  Identities=13%  Similarity=-0.016  Sum_probs=50.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 012126          206 IMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKK  285 (470)
Q Consensus       206 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  285 (470)
                      .+...+.+.|++++|...|++..+.... +...|..+..++...|++++|+..|++..+.... +...+..+..++...|
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcC
Confidence            3444555556666666666655554332 4555555555555666666666666555554333 4445555555555556


Q ss_pred             CHHHHHHHHHHHHH
Q 012126          286 KLREAYKLLCRMKV  299 (470)
Q Consensus       286 ~~~~a~~~~~~m~~  299 (470)
                      ++++|...+++..+
T Consensus       100 ~~~~A~~~~~~al~  113 (121)
T 1hxi_A          100 NANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHH
Confidence            66666655555544

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.18  E-value=2.7e-05  Score=57.45  Aligned_cols=97  Identities=12%  Similarity=-0.020  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC--CHHHHHHHHH
Q 012126          307 VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSP--HFSVSHALIK  384 (470)
Q Consensus       307 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~  384 (470)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+.. +.  +...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~   84 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKAD   84 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHH
Confidence            334445555555555555555555555432 1234455555556666666666666666665542 22  3555666666


Q ss_pred             HHHcc-CCHHHHHHHHHHHHHC
Q 012126          385 GFCNV-GKVDEACGVLEELLKA  405 (470)
Q Consensus       385 ~~~~~-g~~~~a~~~~~~~~~~  405 (470)
                      ++... |++++|.+.+++..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHhCCHHHHHHHHHHHhhc
Confidence            66666 6666666666666554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.16  E-value=1.9e-05  Score=60.28  Aligned_cols=89  Identities=9%  Similarity=0.053  Sum_probs=38.4

Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHH
Q 012126          349 GGLCDQGMFDVAKKYMQLMISKGFSPHF---SVSHALIKGFCNVGKVDEACGVLEELLKAGEAPH---EDTWVMIVPQIC  422 (470)
Q Consensus       349 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~---~~~~~~l~~~~~  422 (470)
                      ..+...|++++|...++.+.+.. +.+.   ..+..+..++...|++++|...|++.++.... +   ...+..+..++.
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~~~   87 (129)
T 2xev_A           10 FDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHH
Confidence            33444444444444444444421 1111   23334444444455555555555444443211 1   333444444444


Q ss_pred             cCCcHHHHHHHHHHHHH
Q 012126          423 AGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       423 ~~g~~~~a~~~~~~m~~  439 (470)
                      ..|++++|...++++++
T Consensus        88 ~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555555443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.15  E-value=8.7e-06  Score=64.79  Aligned_cols=132  Identities=11%  Similarity=0.016  Sum_probs=72.1

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHhchhCCCC-CC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-CHHH
Q 012126          309 YNTVVLGFCREGRAIDACKVLEDMPSNGCL-PN----LVSYRTLVGGLCDQGMFDVAKKYMQLMISK----GFSP-HFSV  378 (470)
Q Consensus       309 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~  378 (470)
                      +..+...+...|++++|+..+++..+.... ++    ...+..+...+...|++++|...+++..+.    +..+ ...+
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            344444445555555555555444332000 01    124455555666666666666666665442    1000 1335


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          379 SHALIKGFCNVGKVDEACGVLEELLKA----GEA-PHEDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       379 ~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      +..+...+...|++++|.+.+++.++.    +.. .....+..+...+...|++++|.+.+++.++.
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            556666777777777777777766532    111 11235666777777888888888888777653

>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=98.14  E-value=4e-05  Score=73.31  Aligned_cols=118  Identities=12%  Similarity=-0.063  Sum_probs=72.3

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 012126          210 AFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLRE  289 (470)
Q Consensus       210 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  289 (470)
                      .+.+.|++++|.+.|++..+.... +..+|..+..+|.+.|++++|++.+++..+.... +..++..+..+|.+.|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHH
Confidence            445667777777777776665332 4666777777777777777777777777766433 55666677777777777777


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHH--HHhcCCHhHHHHHHH
Q 012126          290 AYKLLCRMKVKGCNPDIVHYNTVVLG--FCREGRAIDACKVLE  330 (470)
Q Consensus       290 a~~~~~~m~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~~~  330 (470)
                      |.+.|++..+.. +.+...+..+..+  +.+.|++++|++.++
T Consensus        93 A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            777777766542 1123334444444  666677777777776

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.08  E-value=2.7e-05  Score=61.82  Aligned_cols=26  Identities=23%  Similarity=0.323  Sum_probs=12.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHH
Q 012126          378 VSHALIKGFCNVGKVDEACGVLEELL  403 (470)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~~~  403 (470)
                      ++..+...|...|++++|.+.+++..
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            33444444555555555555555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.06  E-value=0.00017  Score=54.81  Aligned_cols=92  Identities=17%  Similarity=0.051  Sum_probs=49.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC---HhhHHHHHHH
Q 012126          207 MMRAFCFNGDISIAYTLFNKMFERGVMPDV---ESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPD---TLSYTTLLNS  280 (470)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~  280 (470)
                      +...+...|++++|...|++..+.... +.   ..+..+..++...|++++|+..|+++.+.... +   ..++..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHH
Confidence            344455566666666666665554322 11   34445555556666666666666665554322 2   3344455555


Q ss_pred             HHhcCCHHHHHHHHHHHHHc
Q 012126          281 LCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       281 ~~~~~~~~~a~~~~~~m~~~  300 (470)
                      +...|++++|...|+.+.+.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            55566666666666655544

>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=98.04  E-value=7.6e-05  Score=71.00  Aligned_cols=124  Identities=7%  Similarity=-0.037  Sum_probs=69.7

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--------------HHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPD--------------VESYRILMQGLCRKSQVNRAVDLLEDMLNKG  266 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  266 (470)
                      ...|..+...|.+.|++++|...|++.++......              ...|..+..+|.+.|++++|+..+++.++..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            44566677777777888888887777766432211              3455555566666666666666666655543


Q ss_pred             CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHH
Q 012126          267 FVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDAC  326 (470)
Q Consensus       267 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~  326 (470)
                      .. +...|..+..+|...|++++|...|++..+.. +-+...+..+..++.+.++.+++.
T Consensus       348 p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          348 SA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             TT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             Cc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            32 45555555556666666666666666655542 113344455555555555555443

>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=98.02  E-value=6.2e-05  Score=71.61  Aligned_cols=88  Identities=10%  Similarity=0.012  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 012126          342 VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQI  421 (470)
Q Consensus       342 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  421 (470)
                      ..|..+..+|.+.|++++|+..++++++.. +.+...|..+..+|...|++++|...|++.++... -+...+..+..++
T Consensus       318 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~  395 (457)
T 1kt0_A          318 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISMCQ  395 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            444555555555566666666555555542 23445555555556666666666666665555321 1233455555555


Q ss_pred             HcCCcHHHHH
Q 012126          422 CAGEEMEKLG  431 (470)
Q Consensus       422 ~~~g~~~~a~  431 (470)
                      .+.++.+++.
T Consensus       396 ~~~~~~~~a~  405 (457)
T 1kt0_A          396 KKAKEHNERD  405 (457)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.00  E-value=4.7e-06  Score=62.70  Aligned_cols=86  Identities=14%  Similarity=0.135  Sum_probs=47.2

Q ss_pred             cCCHhHHHHHHHhchhCCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHH
Q 012126          319 EGRAIDACKVLEDMPSNGC--LPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEAC  396 (470)
Q Consensus       319 ~~~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  396 (470)
                      .|++++|+..|++..+.+.  +-+...+..+..+|...|++++|...+++.++.. +-+..++..+..++...|++++|.
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            4566666666666655421  1123455555666666666666666666666542 234555566666666666666666


Q ss_pred             HHHHHHHHC
Q 012126          397 GVLEELLKA  405 (470)
Q Consensus       397 ~~~~~~~~~  405 (470)
                      ..+++.++.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666665553

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.98  E-value=0.00015  Score=57.84  Aligned_cols=99  Identities=12%  Similarity=0.065  Sum_probs=66.7

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHC--------CC---------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFER--------GV---------MPDVESYRILMQGLCRKSQVNRAVDLLEDML  263 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--------~~---------~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  263 (470)
                      ...+......+.+.|++++|...|.+.++.        ..         +.+...|..+..+|.+.|++++|+..+++.+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            445667777788888888888888877654        00         1123456666677777777777777777776


Q ss_pred             hCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          264 NKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       264 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      +.... +...|..+..+|...|++++|...|++..+.
T Consensus        91 ~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KREET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            65433 5566666777777777777777777776665

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.95  E-value=1.5e-05  Score=59.95  Aligned_cols=87  Identities=9%  Similarity=0.041  Sum_probs=66.2

Q ss_pred             cCCChHHHHHHHHHhhcCCC-CCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhH
Q 012126           71 SQSDPLLAKEIFDYASRQPN-FRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRA  149 (470)
Q Consensus        71 ~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  149 (470)
                      ..|+++.|+..|+.+..... -+.+...+..+...+.+.|++++|...+++..+.. |.+..++..+..++...|++++|
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            35778888999988876520 02345678888888889999999999999888775 66788888889999999999999


Q ss_pred             HHHHHHHHh
Q 012126          150 LKTFRSMLE  158 (470)
Q Consensus       150 ~~~~~~~~~  158 (470)
                      +..|++...
T Consensus        81 ~~~~~~al~   89 (117)
T 3k9i_A           81 VELLLKIIA   89 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988776

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.94  E-value=8.6e-05  Score=58.22  Aligned_cols=95  Identities=12%  Similarity=0.065  Sum_probs=66.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCC------CC-----HHHHHHHHHHHHccCCHHHHHHHHHHHHHC-----CCCC
Q 012126          346 TLVGGLCDQGMFDVAKKYMQLMISKGFS------PH-----FSVSHALIKGFCNVGKVDEACGVLEELLKA-----GEAP  409 (470)
Q Consensus       346 ~li~~~~~~g~~~~a~~~~~~~~~~~~~------~~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~p  409 (470)
                      .....+.+.|++++|+..|++.++....      .+     ...|..+..++.+.|++++|+..+++.++.     .+.|
T Consensus        16 ~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~p   95 (159)
T 2hr2_A           16 SDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQ   95 (159)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTS
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCC
Confidence            3344455566666666666665553211      02     237888888888888888888888888774     1145


Q ss_pred             CH-HHH----HHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          410 HE-DTW----VMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       410 ~~-~~~----~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      +. ..|    .....++...|++++|+..|++.++.
T Consensus        96 d~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           96 DEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             THHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            44 477    88888999999999999999999854

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.93  E-value=0.00015  Score=66.82  Aligned_cols=122  Identities=11%  Similarity=-0.025  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCC---------------CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERG---------------VMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKG  266 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---------------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  266 (470)
                      ..+..+...+.+.|++++|.+.|++.++.-               -..+..+|..+..+|.+.|++++|++.+++.++..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            446677778888888888888888776520               01123445555555555566666666665555543


Q ss_pred             CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHH
Q 012126          267 FVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDA  325 (470)
Q Consensus       267 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a  325 (470)
                      .. +...+..+..+|...|++++|...|++..+.. +.+...+..+...+...++.+++
T Consensus       304 p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          304 PS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             TT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             ch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            22 44455555555555555555555555555441 11333444444444444444433

>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=97.90  E-value=5.1e-05  Score=72.58  Aligned_cols=115  Identities=11%  Similarity=-0.001  Sum_probs=82.6

Q ss_pred             cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVD  257 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  257 (470)
                      ..|++++|.+.|++..+.... +...|..+..+|.+.|++++|.+.+++..+.... +..++..+..+|...|++++|++
T Consensus        18 ~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~~g~~~eA~~   95 (477)
T 1wao_1           18 KAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKFRAALR   95 (477)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHH
Confidence            445677777777777765432 6788888888888899999999999888887543 67788888888888999999999


Q ss_pred             HHHHHHhCCCCCCHhhHHHHHHH--HHhcCCHHHHHHHHH
Q 012126          258 LLEDMLNKGFVPDTLSYTTLLNS--LCRKKKLREAYKLLC  295 (470)
Q Consensus       258 ~~~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~  295 (470)
                      .|++..+.... +...+..+..+  +.+.|++++|.+.++
T Consensus        96 ~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           96 DYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            98888876433 34455555555  777788888888887

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.87  E-value=4e-05  Score=69.75  Aligned_cols=148  Identities=16%  Similarity=0.060  Sum_probs=84.7

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHH
Q 012126          271 TLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGG  350 (470)
Q Consensus       271 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  350 (470)
                      ...+..+...+.+.|++++|...|++....  .|+...       +...|+.+++...+.          ...|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            455677777888889999999999988765  343321       223333444433221          1367778888


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHH-HHcCCcHH
Q 012126          351 LCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPH-EDTWVMIVPQ-ICAGEEME  428 (470)
Q Consensus       351 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~-~~~~g~~~  428 (470)
                      |.+.|++++|+..+++.++.. +.+...|..+..+|...|++++|...|++.++..  |+ ...+..+... ....+..+
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~--p~~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA--PDDKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999998863 4467888899999999999999999999987643  43 4455555544 23456778


Q ss_pred             HHHHHHHHHHHc
Q 012126          429 KLGEVLNEIVKV  440 (470)
Q Consensus       429 ~a~~~~~~m~~~  440 (470)
                      ++.+.++.|...
T Consensus       317 ~a~~~~~~~l~~  328 (338)
T 2if4_A          317 KQKEMYKGIFKG  328 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHHHhhCC
Confidence            888888888754

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.87  E-value=0.00015  Score=66.84  Aligned_cols=90  Identities=7%  Similarity=-0.044  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 012126          341 LVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQ  420 (470)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  420 (470)
                      ...|..+..+|.+.|++++|+..++++++.. +.+...+..+..+|...|++++|.+.|++.++... -+...+..+..+
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P-~~~~~~~~l~~~  350 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKV  350 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            4566667777777788888888887777653 33566777777777788888888888887776532 245566666666


Q ss_pred             HHcCCcHHHHHH
Q 012126          421 ICAGEEMEKLGE  432 (470)
Q Consensus       421 ~~~~g~~~~a~~  432 (470)
                      +...++.+++.+
T Consensus       351 ~~~~~~~~~a~k  362 (370)
T 1ihg_A          351 KQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666655543

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.83  E-value=0.00083  Score=51.89  Aligned_cols=89  Identities=13%  Similarity=0.023  Sum_probs=40.9

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 012126          207 MMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCR----KSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLC  282 (470)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  282 (470)
                      |...|...+.+++|.++|++..+.|   +...+..|...|..    .+++++|+++|++..+.|   +...+..|..+|.
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~  104 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQY  104 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHH
Confidence            3333334444444444444444443   33444444444444    444555555555544443   3334444444444


Q ss_pred             h----cCCHHHHHHHHHHHHHcC
Q 012126          283 R----KKKLREAYKLLCRMKVKG  301 (470)
Q Consensus       283 ~----~~~~~~a~~~~~~m~~~~  301 (470)
                      .    .++.++|.+.|++..+.|
T Consensus       105 ~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A          105 AGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCC
Confidence            4    445555555555544443

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.80  E-value=0.0011  Score=51.19  Aligned_cols=110  Identities=15%  Similarity=0.145  Sum_probs=58.6

Q ss_pred             CchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCChhHH
Q 012126          145 LPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCF----NGDISIA  220 (470)
Q Consensus       145 ~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a  220 (470)
                      ++++|++.|++..+.| .|+..     +..++...+..++|.+.|++..+.|   +...+..|...|..    .+++++|
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~-----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC-----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH-----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh-----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            4455566665555544 22222     4444444444555666666555543   44555555555555    5556666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhCC
Q 012126          221 YTLFNKMFERGVMPDVESYRILMQGLCR----KSQVNRAVDLLEDMLNKG  266 (470)
Q Consensus       221 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~  266 (470)
                      .++|++..+.|   +...+..|...|..    .++.++|++.|++..+.|
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            66666655554   44555555555555    555666666666555554

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.79  E-value=0.0012  Score=64.37  Aligned_cols=176  Identities=6%  Similarity=-0.053  Sum_probs=121.5

Q ss_pred             cCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC----------hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          178 HRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGD----------ISIAYTLFNKMFERGVMPDVESYRILMQGLC  247 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  247 (470)
                      .+...++|++.++++...... +..+|+.--..+...|+          ++++++.++++.+...+ +..+|+.-..++.
T Consensus        41 ~~~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~  118 (567)
T 1dce_A           41 AGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLS  118 (567)
T ss_dssp             TTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            344456777777777776543 56667665555555555          78888888888877655 7777777777777


Q ss_pred             HcC--ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-----
Q 012126          248 RKS--QVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKK-KLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCRE-----  319 (470)
Q Consensus       248 ~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-----  319 (470)
                      +.+  +++++++.++++.+.... +..+|+.-..++.+.| .++++.+.++++.+.. +-+...|+.....+.+.     
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~  196 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPD  196 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HcccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccc
Confidence            777  568888888888887655 7777777777777777 7888888888877764 33566676666665552     


Q ss_pred             ---------CCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChH
Q 012126          320 ---------GRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFD  358 (470)
Q Consensus       320 ---------~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  358 (470)
                               +.++++++.+++..... +-|...|..+-..+.+.++.+
T Consensus       197 ~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          197 SGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             SSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCS
T ss_pred             ccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCcc
Confidence                     45678888888877643 235667777666666666533

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.78  E-value=0.004  Score=60.71  Aligned_cols=174  Identities=9%  Similarity=-0.020  Sum_probs=119.2

Q ss_pred             hcCC-hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC----------hHHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 012126          213 FNGD-ISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQ----------VNRAVDLLEDMLNKGFVPDTLSYTTLLNSL  281 (470)
Q Consensus       213 ~~g~-~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  281 (470)
                      +.|+ -++|++.++++...+.. +..+|+.--.++...|+          ++++++.++.+.+...+ +..+|+.-..++
T Consensus        40 ~~~~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l  117 (567)
T 1dce_A           40 QAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLL  117 (567)
T ss_dssp             HTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            3344 45778889888887655 66677766666666666          88888888888887666 777887777777


Q ss_pred             HhcC--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhc----
Q 012126          282 CRKK--KLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREG-RAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQ----  354 (470)
Q Consensus       282 ~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~----  354 (470)
                      .+.+  +++++.+.++++.+.. +-+...|+.-...+.+.| .++++++.++++.+... -|...|+.....+.+.    
T Consensus       118 ~~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p-~n~saW~~r~~ll~~l~~~~  195 (567)
T 1dce_A          118 SRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQP  195 (567)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCC
T ss_pred             HHcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC-CCccHHHHHHHHHHhhcccc
Confidence            7888  6788888888888774 336677777777777777 78888888888877643 3566676666555543    


Q ss_pred             ----------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC
Q 012126          355 ----------GMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGK  391 (470)
Q Consensus       355 ----------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  391 (470)
                                +.++++.+.+.+++... +-|...|+.+-..+.+.++
T Consensus       196 ~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          196 DSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             CSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCC
T ss_pred             cccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCC
Confidence                      33556666666666542 3344555555555555554

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.75  E-value=0.00051  Score=53.85  Aligned_cols=95  Identities=12%  Similarity=-0.050  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC------CH-----HHHHHHHHHHHHcCChHHHHHHHHHHHhC------
Q 012126          203 SYNIMMRAFCFNGDISIAYTLFNKMFERGVMP------DV-----ESYRILMQGLCRKSQVNRAVDLLEDMLNK------  265 (470)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p------~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------  265 (470)
                      .+......+.+.|++++|+..|++.++.....      +.     ..|..+..++.+.|++++|+..+++.++.      
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            34455566667777777777777766653221      11     25555555555556655555555555543      


Q ss_pred             -CCCCCHhhH----HHHHHHHHhcCCHHHHHHHHHHHH
Q 012126          266 -GFVPDTLSY----TTLLNSLCRKKKLREAYKLLCRMK  298 (470)
Q Consensus       266 -~~~~~~~~~----~~ll~~~~~~~~~~~a~~~~~~m~  298 (470)
                       ... +...|    .....++...|++++|+..|++..
T Consensus        93 ~~pd-~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           93 LNQD-EGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             TTST-HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCCc-hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence             221 22334    444444455555555555554443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.71  E-value=9.5e-05  Score=70.40  Aligned_cols=126  Identities=11%  Similarity=0.042  Sum_probs=85.4

Q ss_pred             HHHhcCCHhHHHHHHHhchhC---CCCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----CC-CCC-HHHHH
Q 012126          315 GFCREGRAIDACKVLEDMPSN---GCLP----NLVSYRTLVGGLCDQGMFDVAKKYMQLMISK-----GF-SPH-FSVSH  380 (470)
Q Consensus       315 ~~~~~~~~~~a~~~~~~m~~~---~~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~-~~~-~~~~~  380 (470)
                      .+...|++++|+.++++..+.   -+.|    ...+++.|..+|...|++++|+.++++.++.     |- .|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            345678888888877765442   1112    2456788888888888888888888876642     21 122 34677


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHH-----CCCC-CC-HHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          381 ALIKGFCNVGKVDEACGVLEELLK-----AGEA-PH-EDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~~~~-----~~~~-p~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      .|...|...|++++|+.++++.++     .|.. |+ ..+...+..++...+.+++|..++..+++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888887653     2422 22 224456666777888888888888888764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.70  E-value=0.00017  Score=68.68  Aligned_cols=125  Identities=10%  Similarity=-0.075  Sum_probs=91.2

Q ss_pred             HHhcCCHHHHHHHHHHHHHcC---CC---C-CHHHHHHHHHHHHhcCCHhHHHHHHHhchhC-----CC-CC-CHHHHHH
Q 012126          281 LCRKKKLREAYKLLCRMKVKG---CN---P-DIVHYNTVVLGFCREGRAIDACKVLEDMPSN-----GC-LP-NLVSYRT  346 (470)
Q Consensus       281 ~~~~~~~~~a~~~~~~m~~~~---~~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~-~p-~~~~~~~  346 (470)
                      +...|++++|+.++++.++..   +.   | ...+++.|...|...|++++|..++++..+-     |. .| ...+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            556889999999888775531   11   2 2467888889999999999999888876542     21 12 2467888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHH-----CCCC-CC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMIS-----KGFS-PH-FSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~-----~~~~-~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      |...|...|++++|+.++++..+     .|-. |+ ..+.+.+-.++...+.+++|+.+|+.+.+.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988765     2321 22 335566677888889999999999988653

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.69  E-value=6.8e-05  Score=55.30  Aligned_cols=63  Identities=11%  Similarity=0.110  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          237 ESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       237 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      ..+..+...+...|++++|++.|++..+.... +...+..+..++.+.|++++|...+++..+.
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34444445555555555555555555444322 3444555555555555555555555555443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.66  E-value=0.00017  Score=65.61  Aligned_cols=148  Identities=8%  Similarity=-0.026  Sum_probs=73.6

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNS  280 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  280 (470)
                      ...+..+...+.+.|++++|...|++.....  |+...       +...++.+++...+.          ...|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            3456667777778888888888888877652  22221       112222333322211          1256677777


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCC-HHHHHHHHHH-HHhcCChH
Q 012126          281 LCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN-LVSYRTLVGG-LCDQGMFD  358 (470)
Q Consensus       281 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~-~~~~g~~~  358 (470)
                      |.+.|++++|+..+++..+.. +.+...|..+..+|...|++++|...|++..+.  .|+ ...+..+... ....+..+
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHH
Confidence            778888888888888777652 235667777777888888888888888877664  233 3334433333 23445667


Q ss_pred             HHHHHHHHHHHC
Q 012126          359 VAKKYMQLMISK  370 (470)
Q Consensus       359 ~a~~~~~~~~~~  370 (470)
                      ++..+|..|...
T Consensus       317 ~a~~~~~~~l~~  328 (338)
T 2if4_A          317 KQKEMYKGIFKG  328 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHHHhhCC
Confidence            777777777654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.60  E-value=0.00077  Score=49.99  Aligned_cols=79  Identities=10%  Similarity=0.053  Sum_probs=47.1

Q ss_pred             hHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 012126          184 PAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDML  263 (470)
Q Consensus       184 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  263 (470)
                      .+...|++..+... .+...+..+...|...|++++|...|++..+.... +...|..+..+|...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQGT-DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTTC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34555555555432 25566666666666666666666666666655432 45556666666666666666666666655


Q ss_pred             h
Q 012126          264 N  264 (470)
Q Consensus       264 ~  264 (470)
                      +
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.58  E-value=6.2e-05  Score=55.53  Aligned_cols=65  Identities=12%  Similarity=0.136  Sum_probs=46.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          340 NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      +...+..+...+...|++++|...+++.++.. +.+...+..+..++...|++++|.+.+++.++.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34456666677777777777777777777653 335667777777777778888888887777764

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.51  E-value=0.0012  Score=46.25  Aligned_cols=63  Identities=16%  Similarity=0.272  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK  265 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  265 (470)
                      ..+..+...+...|++++|...|++..+.... +...+..+..++...|++++|+..+++..+.
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            34455555555566666666666555554322 4445555555555555555555555555544

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.48  E-value=0.00096  Score=49.47  Aligned_cols=79  Identities=13%  Similarity=0.029  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 012126          219 IAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMK  298 (470)
Q Consensus       219 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  298 (470)
                      .|...|++..+.... +...+..+...|...|++++|+..|++..+.... +...+..+..+|...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            345555555554322 4555555666666666666666666665554332 34455555556666666666666665554


Q ss_pred             H
Q 012126          299 V  299 (470)
Q Consensus       299 ~  299 (470)
                      +
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.42  E-value=0.0017  Score=45.47  Aligned_cols=78  Identities=17%  Similarity=0.161  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 012126          342 VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQI  421 (470)
Q Consensus       342 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  421 (470)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+... .+...+..+..++
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~l~~~~   87 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHH
Confidence            344455555566666666666666655542 23445555566666666666666666666655431 2344444444444

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.37  E-value=0.00057  Score=53.46  Aligned_cols=46  Identities=11%  Similarity=-0.010  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC-----------CHHHHHHHHHHHHHc
Q 012126          254 RAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKK-----------KLREAYKLLCRMKVK  300 (470)
Q Consensus       254 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----------~~~~a~~~~~~m~~~  300 (470)
                      +|+..|++.++..+. +..+|..+..+|...|           ++++|.+.|++..+.
T Consensus        64 eAi~~le~AL~ldP~-~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           64 EAITKFEEALLIDPK-KDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcC-cHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            455555554444333 3344444444444432           455555555555443

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.31  E-value=0.00034  Score=54.71  Aligned_cols=99  Identities=10%  Similarity=-0.076  Sum_probs=77.6

Q ss_pred             cCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCc----------hHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012126           71 SQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYF----------SLIDDILITLKSEHYPVTPSLFTYLIKIY  140 (470)
Q Consensus        71 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~li~~~  140 (470)
                      +.+.+++|++.++.+....  +.+...|..+..++...+++          ++|+..|++.++.. |....+|..+..+|
T Consensus        14 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           14 RILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            4456788999999887654  45788888888888887765          49999999998886 66888999999999


Q ss_pred             HHcC-----------CchhHHHHHHHHHhCCCccCHHHHHHHHHH
Q 012126          141 AESN-----------LPDRALKTFRSMLEFNCKPLPKQLNRILEL  174 (470)
Q Consensus       141 ~~~g-----------~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~  174 (470)
                      ...|           ++++|++.|++.++  +.|+...|...+..
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~  133 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEM  133 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            8774           78889999988887  45776666655554

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.26  E-value=0.0016  Score=46.94  Aligned_cols=64  Identities=9%  Similarity=0.046  Sum_probs=41.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          340 NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      +...+..+...+...|++++|+..|++.++.. +.+...|..+..+|...|++++|.+.|++.++
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45556666666667777777777777766653 22445666666667777777777777666654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.10  E-value=0.0031  Score=45.31  Aligned_cols=64  Identities=17%  Similarity=0.166  Sum_probs=37.2

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLN  264 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  264 (470)
                      +...+..+...|...|++++|+..|++..+.... +...|..+..+|...|++++|++.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4455556666666666666666666666555433 344555566666666666666666655543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.84  E-value=0.044  Score=56.10  Aligned_cols=153  Identities=11%  Similarity=0.042  Sum_probs=87.8

Q ss_pred             HHhcCChhHHHH-HHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 012126          211 FCFNGDISIAYT-LFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLRE  289 (470)
Q Consensus       211 ~~~~g~~~~a~~-~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  289 (470)
                      ....+++++|.+ ++..+     + +......++..+.+.|..+.|+++.+.-        .    .-.......|+++.
T Consensus       609 ~~~~~~~~~a~~~~l~~i-----~-~~~~~~~~~~~l~~~~~~~~a~~~~~~~--------~----~~f~~~l~~~~~~~  670 (814)
T 3mkq_A          609 LTLRGEIEEAIENVLPNV-----E-GKDSLTKIARFLEGQEYYEEALNISPDQ--------D----QKFELALKVGQLTL  670 (814)
T ss_dssp             HHHTTCHHHHHHHTGGGC-----C-CHHHHHHHHHHHHHTTCHHHHHHHCCCH--------H----HHHHHHHHHTCHHH
T ss_pred             HHHhCCHHHHHHHHHhcC-----C-chHHHHHHHHHHHhCCChHHheecCCCc--------c----hheehhhhcCCHHH
Confidence            345677777765 44111     1 0222356666677777777777655211        1    11233455677777


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          290 AYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       290 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      |.++.+.+      .+...|..+...+.+.|+++.|.+.|..+..         |..+...+...|+.+...++.+....
T Consensus       671 A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~  735 (814)
T 3mkq_A          671 ARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAET  735 (814)
T ss_dssp             HHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHH
Confidence            77775443      2567777788888888888888888877654         33344445556666666665555555


Q ss_pred             CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 012126          370 KGFSPHFSVSHALIKGFCNVGKVDEACGVLEEL  402 (470)
Q Consensus       370 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  402 (470)
                      .|.      ++.-..+|.+.|++++|.+++.++
T Consensus       736 ~~~------~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          736 TGK------FNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             TTC------HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             cCc------hHHHHHHHHHcCCHHHHHHHHHHc
Confidence            431      233334455566666666666544

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.84  E-value=0.003  Score=59.06  Aligned_cols=87  Identities=9%  Similarity=0.014  Sum_probs=58.0

Q ss_pred             hcCChHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHHC-----CC-CCCH-HHHHHHH
Q 012126          353 DQGMFDVAKKYMQLMISK---GFSPH----FSVSHALIKGFCNVGKVDEACGVLEELLKA-----GE-APHE-DTWVMIV  418 (470)
Q Consensus       353 ~~g~~~~a~~~~~~~~~~---~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~-~p~~-~~~~~l~  418 (470)
                      ..|++++|+.++++.++.   -+.|+    ..+++.+..+|...|++++|+.++++.++.     |. .|+. .+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            346777777777776542   12222    346777788888888888888888776532     31 1222 3677777


Q ss_pred             HHHHcCCcHHHHHHHHHHHHH
Q 012126          419 PQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       419 ~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      ..|...|++++|..++++.++
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            888888888888888877754

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.80  E-value=0.018  Score=51.87  Aligned_cols=71  Identities=15%  Similarity=0.029  Sum_probs=37.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 012126          340 NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTW  414 (470)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  414 (470)
                      +..+|..+...+...|++++|...+++++..+  |+...|..+...+.-.|++++|.+.|++....  .|...+|
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~  346 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTL  346 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChH
Confidence            44455554444444555666666665555543  44444444455555556666666665555553  2444443

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.73  E-value=0.0059  Score=57.12  Aligned_cols=91  Identities=12%  Similarity=0.023  Sum_probs=51.2

Q ss_pred             HHHHhcCChHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHHC-----CC-CCC-HHHH
Q 012126          349 GGLCDQGMFDVAKKYMQLMISK---GFSPH----FSVSHALIKGFCNVGKVDEACGVLEELLKA-----GE-APH-EDTW  414 (470)
Q Consensus       349 ~~~~~~g~~~~a~~~~~~~~~~---~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~-~p~-~~~~  414 (470)
                      ..+.+.|++++|+.++++.++.   -+.++    ..+++.+..+|...|++++|+.++++.++.     |. .|+ ..++
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            3444556666666666666542   11122    335666666666667777776666665431     21 112 2255


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          415 VMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       415 ~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      +.|...|...|++++|..+++++++
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            6666666677777777766666643

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.71  E-value=0.0054  Score=43.71  Aligned_cols=59  Identities=10%  Similarity=0.126  Sum_probs=40.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMISKGFSPHFS-VSHALIKGFCNVGKVDEACGVLEELLKAG  406 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~  406 (470)
                      ....+...|++++|...++++++.. +.+.. .+..+..+|...|++++|.+.|++.++..
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            3445666777777777777777653 33455 67777777777778888888777777654

>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=96.65  E-value=0.11  Score=44.92  Aligned_cols=84  Identities=12%  Similarity=0.059  Sum_probs=43.9

Q ss_pred             hHHHHHHHhchhCCCCCC---HHHHHHHHHHHHh-----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-cCCHH
Q 012126          323 IDACKVLEDMPSNGCLPN---LVSYRTLVGGLCD-----QGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCN-VGKVD  393 (470)
Q Consensus       323 ~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~-----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~  393 (470)
                      ..|..++++..+.  .|+   ...|..+...|.+     -|+.++|.+.|++.++.+-.-+..++..+.+.++. .|+.+
T Consensus       180 ~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            3445555555542  344   3345555555555     26666666666666654211124455555555555 36666


Q ss_pred             HHHHHHHHHHHCCCC
Q 012126          394 EACGVLEELLKAGEA  408 (470)
Q Consensus       394 ~a~~~~~~~~~~~~~  408 (470)
                      ++.+.+++.+.....
T Consensus       258 ~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          258 GFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHcCCCC
Confidence            666666666654433

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.56  E-value=0.026  Score=50.81  Aligned_cols=64  Identities=17%  Similarity=0.100  Sum_probs=38.4

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK  265 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  265 (470)
                      +..+|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.|++....
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            55555555555555566666666666666654  45555555556666666666666666665554

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.53  E-value=0.017  Score=54.08  Aligned_cols=92  Identities=11%  Similarity=-0.035  Sum_probs=71.1

Q ss_pred             HHHHHhcCCHhHHHHHHHhchhCC---CCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----C-CCCC-HHH
Q 012126          313 VLGFCREGRAIDACKVLEDMPSNG---CLPN----LVSYRTLVGGLCDQGMFDVAKKYMQLMISK-----G-FSPH-FSV  378 (470)
Q Consensus       313 i~~~~~~~~~~~a~~~~~~m~~~~---~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~-~~~~-~~~  378 (470)
                      +..+.+.|++++|+.++++..+..   ..|+    ..+++.+..+|...|++++|+.+++++++.     | ..|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            445667899999999998876531   2222    457888999999999999999999987752     2 1222 457


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          379 SHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       379 ~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      ++.|...|...|++++|+.++++.++
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            88899999999999999999998764

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.53  E-value=0.0046  Score=57.80  Aligned_cols=87  Identities=14%  Similarity=0.025  Sum_probs=66.0

Q ss_pred             hcCCHhHHHHHHHhchhC---CCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----C-CCCC-HHHHHHHH
Q 012126          318 REGRAIDACKVLEDMPSN---GCLPN----LVSYRTLVGGLCDQGMFDVAKKYMQLMISK-----G-FSPH-FSVSHALI  383 (470)
Q Consensus       318 ~~~~~~~a~~~~~~m~~~---~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~-~~~~-~~~~~~li  383 (470)
                      ..|++++|+.++++..+.   -+.|+    ..+++.|..+|...|++++|+.++++.++.     | -.|+ ..+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            357888888888876542   12222    467888999999999999999999987752     3 1222 45788899


Q ss_pred             HHHHccCCHHHHHHHHHHHHH
Q 012126          384 KGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      ..|...|++++|+.++++.++
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999998764

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.47  E-value=0.015  Score=41.26  Aligned_cols=53  Identities=17%  Similarity=0.176  Sum_probs=23.1

Q ss_pred             HHHcCChHHHHHHHHHHHhCCCCCCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 012126          246 LCRKSQVNRAVDLLEDMLNKGFVPDTL-SYTTLLNSLCRKKKLREAYKLLCRMKV  299 (470)
Q Consensus       246 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~  299 (470)
                      +...|++++|++.|+++.+.... +.. .+..+..+|...|++++|...|++..+
T Consensus        10 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A           10 LINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34444444444444444443222 233 444444444444444444444444443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.36  E-value=0.03  Score=39.47  Aligned_cols=65  Identities=9%  Similarity=-0.045  Sum_probs=33.4

Q ss_pred             CHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          340 NLVSYRTLVGGLCDQGM---FDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       340 ~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      |...+..+..++...++   .++|..++++.++.. +-+......+...+...|++++|...|+++++.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            44445555555443332   455566665555542 223444455555555566666666666665553

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.36  E-value=0.097  Score=53.50  Aligned_cols=128  Identities=14%  Similarity=0.100  Sum_probs=86.1

Q ss_pred             HHHHHcCChHHHHH-HHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 012126          244 QGLCRKSQVNRAVD-LLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRA  322 (470)
Q Consensus       244 ~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  322 (470)
                      ......+++++|.+ ++..+      ++......++..+.+.|..+.|.++.+.-.            .-.....+.|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCH
Confidence            34456788888877 55221      112233778888899999999987664211            113345678999


Q ss_pred             hHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 012126          323 IDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEEL  402 (470)
Q Consensus       323 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  402 (470)
                      ++|+++.+.+      .+...|..+...+.+.|+++.|++.|..+.+         |..+...|...|+.+...++.+..
T Consensus       669 ~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a  733 (814)
T 3mkq_A          669 TLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDA  733 (814)
T ss_dssp             HHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHH
Confidence            9999997665      3678999999999999999999999998743         233334444455555555444444


Q ss_pred             HH
Q 012126          403 LK  404 (470)
Q Consensus       403 ~~  404 (470)
                      ..
T Consensus       734 ~~  735 (814)
T 3mkq_A          734 ET  735 (814)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.32  E-value=0.16  Score=40.31  Aligned_cols=129  Identities=12%  Similarity=0.067  Sum_probs=87.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChH
Q 012126          279 NSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFD  358 (470)
Q Consensus       279 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  358 (470)
                      +.....|+++.|.++.+.+.      +...|..|.......|+++-|.+.|.....         +..+.-.|.-.|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l~------~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKLN------DSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHHC------CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHhC------CHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            44556888888888877662      677888999988899999999988888754         344555566678887


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHH
Q 012126          359 VAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEI  437 (470)
Q Consensus       359 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m  437 (470)
                      +..++-+.....|   +   ++.-...+...|+++++.++|.+.-+   -|  ..    +-.....|-.+.|.++.+++
T Consensus        78 ~L~kla~iA~~~g---~---~n~af~~~l~lGdv~~~i~lL~~~~r---~~--eA----~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           78 KLSKMQNIAQTRE---D---FGSMLLNTFYNNSTKERSSIFAEGGS---LP--LA----YAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHTT---C---HHHHHHHHHHHTCHHHHHHHHHHTTC---HH--HH----HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCc---c---HHHHHHHHHHcCCHHHHHHHHHHCCC---hH--HH----HHHHHHcCcHHHHHHHHHHh
Confidence            7777766666554   2   34555556678899999888865422   11  11    11123356677777777766

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.31  E-value=0.22  Score=37.16  Aligned_cols=65  Identities=22%  Similarity=0.165  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC
Q 012126          342 VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGE  407 (470)
Q Consensus       342 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  407 (470)
                      ..+...+......|.-++..+++..+... .+|++...-.+..+|.+.|+..+|.+++.+.-+.|+
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 EHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            34444455555556666666665554332 245555555555666666666666666666555554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.24  E-value=0.24  Score=36.95  Aligned_cols=67  Identities=12%  Similarity=-0.027  Sum_probs=45.1

Q ss_pred             CHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 012126          305 DIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF  372 (470)
Q Consensus       305 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  372 (470)
                      +....+..+..+...|.-++..+++.++.. +.+|+......+..+|.+.|+..++.+++.++-+.|+
T Consensus        90 ~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           90 LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            334455566667777777777777777433 2456677777777777777777777777777777765

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.19  E-value=0.015  Score=44.91  Aligned_cols=81  Identities=14%  Similarity=0.092  Sum_probs=49.1

Q ss_pred             HhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHccCCHHHHH
Q 012126          322 AIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQG---MFDVAKKYMQLMISKGFSP--HFSVSHALIKGFCNVGKVDEAC  396 (470)
Q Consensus       322 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~  396 (470)
                      ...+.+-|.+..+.|. ++..+...+..++++.+   +.+++..++++..+.+ .|  +...+-.+.-+|.+.|++++|.
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 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            3445555555555443 55556555666666666   4557777777776653 23  2445555556667777777777


Q ss_pred             HHHHHHHH
Q 012126          397 GVLEELLK  404 (470)
Q Consensus       397 ~~~~~~~~  404 (470)
                      +.++.+++
T Consensus        92 ~y~~~lL~   99 (152)
T 1pc2_A           92 KYVRGLLQ   99 (152)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            77777766

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.97  E-value=0.093  Score=36.87  Aligned_cols=65  Identities=6%  Similarity=0.079  Sum_probs=29.3

Q ss_pred             CHHHHHHHHHHHHhcCC---hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 012126          200 NTKSYNIMMRAFCFNGD---ISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK  265 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  265 (470)
                      |...+..+..++...++   .++|..++++..+.... +......+...+.+.|++++|+..|+.+.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34444444444432222   34555555554444332 3444444444445555555555555554443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.92  E-value=0.032  Score=40.30  Aligned_cols=66  Identities=15%  Similarity=0.077  Sum_probs=42.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC------CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          340 NLVSYRTLVGGLCDQGMFDVAKKYMQLMISKG------FSPHFSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      +..-+..+...+.+.|+++.|...++...+.-      -.....++..+..+|.+.|++++|..++++..+.
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            34445556666777777777777777766531      1233456666777777777777777777777663

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.88  E-value=0.097  Score=37.64  Aligned_cols=66  Identities=9%  Similarity=0.110  Sum_probs=39.0

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCC------CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERG------VMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNK  265 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  265 (470)
                      +...+..|...+...|+++.|...|+...+.-      ..+....+..+..++.+.|+++.|+..++++.+.
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            44455566666666677777766666655421      1224455566666666666666666666666554

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.68  E-value=0.053  Score=46.79  Aligned_cols=92  Identities=15%  Similarity=0.234  Sum_probs=73.7

Q ss_pred             hHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHcc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC-CcH
Q 012126          357 FDVAKKYMQLMISKGFSPH---FSVSHALIKGFCNV-----GKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAG-EEM  427 (470)
Q Consensus       357 ~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~-----g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~  427 (470)
                      ...|..++++.++.  .|+   ...|..+...|.+.     |+.++|.+.|++.++.+..-+..++......++.. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            45777778888774  555   56888999999884     99999999999999955222478888889988884 999


Q ss_pred             HHHHHHHHHHHHcccc--CCceeee
Q 012126          428 EKLGEVLNEIVKVEIK--GDTRIVE  450 (470)
Q Consensus       428 ~~a~~~~~~m~~~~~~--p~~~~~~  450 (470)
                      +++.+++++.+.....  |+..+.+
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHH
Confidence            9999999999998877  6655444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.50  E-value=0.093  Score=40.49  Aligned_cols=79  Identities=18%  Similarity=0.090  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC---CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHcCCcHHHHHH
Q 012126          358 DVAKKYMQLMISKGFSPHFSVSHALIKGFCNVG---KVDEACGVLEELLKAGEAP--HEDTWVMIVPQICAGEEMEKLGE  432 (470)
Q Consensus       358 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~a~~  432 (470)
                      ..+.+.|.+..+.|. ++..+...+..++++.+   +++++..+|++..+.+ .|  +...+..|.-+|.+.|++++|.+
T Consensus        15 ~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           15 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHH
Confidence            344444444444432 45555555555555555   4445666666555533 12  23344444555566666666666


Q ss_pred             HHHHHH
Q 012126          433 VLNEIV  438 (470)
Q Consensus       433 ~~~~m~  438 (470)
                      +++.++
T Consensus        93 y~~~lL   98 (152)
T 1pc2_A           93 YVRGLL   98 (152)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666665

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.30  E-value=0.83  Score=36.16  Aligned_cols=101  Identities=10%  Similarity=0.115  Sum_probs=58.1

Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 012126          211 FCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREA  290 (470)
Q Consensus       211 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  290 (470)
                      ....|+++.|.++.+++      -+...|..|.......|+++-|++.|....+         +..+.-.|.-.|+.++.
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L   79 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKL   79 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHH
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHH
Confidence            34567777777666554      1556677777777777777777776665432         33444445556666665


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhc
Q 012126          291 YKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDM  332 (470)
Q Consensus       291 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  332 (470)
                      .++-+.....|      -++.....+...|+++++.++|.+.
T Consensus        80 ~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           80 SKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            55544444332      1344444555566777776666553

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=95.20  E-value=0.3  Score=37.27  Aligned_cols=102  Identities=13%  Similarity=0.102  Sum_probs=51.6

Q ss_pred             CHHHHHHHHHHHHhcCCH------hHHHHHHHhchhCCCCCCHH----HHHHHHH---HHHhcCChHHHHHHHHHHHHCC
Q 012126          305 DIVHYNTVVLGFCREGRA------IDACKVLEDMPSNGCLPNLV----SYRTLVG---GLCDQGMFDVAKKYMQLMISKG  371 (470)
Q Consensus       305 ~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~~~~~p~~~----~~~~li~---~~~~~g~~~~a~~~~~~~~~~~  371 (470)
                      |..+|-..+...-+.|+.      ++..++|++.... ++|+..    .|-.+--   .+...++.++|.++|+.+++.+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            555666666666666666      6666666665553 444321    0111100   1122356666666666665431


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC
Q 012126          372 FSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEA  408 (470)
Q Consensus       372 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  408 (470)
                       +-=..+|-....--.+.|++..|.+++...+..+.+
T Consensus        91 -KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           91 -KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             -TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             -HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence             111445555555555566666666666666655443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.92  E-value=0.12  Score=38.26  Aligned_cols=82  Identities=18%  Similarity=0.095  Sum_probs=40.4

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHH---HHHHHHHHHHCCCC-CCHHHHHHHHHHHHcCCcHHHHHH
Q 012126          357 FDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDE---ACGVLEELLKAGEA-PHEDTWVMIVPQICAGEEMEKLGE  432 (470)
Q Consensus       357 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~---a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~a~~  432 (470)
                      +..+.+.|.+....|. ++..+-..+..++++......   ++.++++..+.+-+ -.....-.|.-++.+.|++++|.+
T Consensus        17 l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~   95 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALK   95 (126)
T ss_dssp             HHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHH
Confidence            3344444444444332 444555555555555554444   55566655553210 122233344455666666666666


Q ss_pred             HHHHHHH
Q 012126          433 VLNEIVK  439 (470)
Q Consensus       433 ~~~~m~~  439 (470)
                      +++.+++
T Consensus        96 ~~~~lL~  102 (126)
T 1nzn_A           96 YVRGLLQ  102 (126)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666663

>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=93.91  E-value=0.73  Score=35.18  Aligned_cols=103  Identities=12%  Similarity=0.091  Sum_probs=60.8

Q ss_pred             CHHHHHHHHHHHHhcCCh------hHHHHHHHHHHHCCCCCCHH-HHHHHHH------HHHHcCChHHHHHHHHHHHhCC
Q 012126          200 NTKSYNIMMRAFCFNGDI------SIAYTLFNKMFERGVMPDVE-SYRILMQ------GLCRKSQVNRAVDLLEDMLNKG  266 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~------~~a~~~~~~m~~~~~~p~~~-~~~~ll~------~~~~~~~~~~a~~~~~~~~~~~  266 (470)
                      |..+|-..+...-+.|+.      ++..++|++.... ++|+.. .|...+.      .+...+|.++|.++|+.+++..
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            555555555555555666      6666777766653 344311 1111111      1233477888888888886653


Q ss_pred             CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 012126          267 FVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNP  304 (470)
Q Consensus       267 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~  304 (470)
                      -.. ...|......-.+.|++..|.+++......+.+|
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            332 5556666666667888888888888887766443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=93.34  E-value=0.46  Score=35.17  Aligned_cols=80  Identities=19%  Similarity=0.076  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHH---HHHHHHHHHhCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 012126          220 AYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNR---AVDLLEDMLNKGFV-PDTLSYTTLLNSLCRKKKLREAYKLLC  295 (470)
Q Consensus       220 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~  295 (470)
                      +.+-|.+....|. ++..+-..+..++.++.+...   ++.+++++.+.+.. -.....-.|.-++.+.|++++|.+.++
T Consensus        20 ~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~   98 (126)
T 1nzn_A           20 FEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVR   98 (126)
T ss_dssp             HHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            3344443333332 344444444445555444433   55555555544210 011122223334555555555555555


Q ss_pred             HHHHc
Q 012126          296 RMKVK  300 (470)
Q Consensus       296 ~m~~~  300 (470)
                      .+++.
T Consensus        99 ~lL~~  103 (126)
T 1nzn_A           99 GLLQT  103 (126)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            55544

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=93.16  E-value=8.6  Score=39.35  Aligned_cols=256  Identities=11%  Similarity=0.010  Sum_probs=119.4

Q ss_pred             HHccCCchHHHHHHHHHhhCCCCCCHHHHH--HHHHHHHHcCCchhHHHHHHHHHhCCC--ccC----HHHHHHHHHH-H
Q 012126          105 LGRAKYFSLIDDILITLKSEHYPVTPSLFT--YLIKIYAESNLPDRALKTFRSMLEFNC--KPL----PKQLNRILEL-L  175 (470)
Q Consensus       105 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~li~~~~~~g~~~~A~~~~~~~~~~~~--~p~----~~~~~~ll~~-~  175 (470)
                      .+..++.+++..+++.....+-..++.+-.  .+.-..+.+|..+++.+.+...+...-  .-+    .......+.. +
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            445566666666665544321011222222  233334445555566666665543211  000    1111111111 1


Q ss_pred             HhcCCChhhHHHHHHHHHHCCCCCCHHH--HH--HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH--HHHc
Q 012126          176 VTHRNYLRPAFDLFKSAHKHGVLPNTKS--YN--IMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQG--LCRK  249 (470)
Q Consensus       176 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~--~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~--~~~~  249 (470)
                      ...+..-+++.+.+..+....   +...  ..  .|...++-.|+-+....++..+.+..   +..+...+.-+  +...
T Consensus       464 a~~GS~~eev~e~L~~~L~dd---~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~  537 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYND---SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINY  537 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTC---CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTT
T ss_pred             HhcCCCCHHHHHHHHHHHhcC---CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhC
Confidence            111111245566666655432   2111  11  22333445566666666666655432   22333333333  3356


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHhhH--HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHH
Q 012126          250 SQVNRAVDLLEDMLNKGFVPDTLSY--TTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACK  327 (470)
Q Consensus       250 ~~~~~a~~~~~~~~~~~~~~~~~~~--~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  327 (470)
                      |+.+.+..+.+.+.... .|....-  .++.-+|+..|+.....+++..+.... ..++.....+.-++...|+.+.+.+
T Consensus       538 g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~r  615 (963)
T 4ady_A          538 GRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPR  615 (963)
T ss_dssp             TCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHH
T ss_pred             CChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHH
Confidence            77777777777766531 2121111  123345667778777777777776542 2223333333334445666666777


Q ss_pred             HHHhchhCCCCCCHHHHHHHHHHHHhcCCh-HHHHHHHHHHHH
Q 012126          328 VLEDMPSNGCLPNLVSYRTLVGGLCDQGMF-DVAKKYMQLMIS  369 (470)
Q Consensus       328 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~  369 (470)
                      +++.+.+.+ .|....-..+.-+....|.. .++..++..+..
T Consensus       616 lv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          616 IVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             HTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            776665543 34433333344444444443 466666766654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.08  E-value=0.36  Score=48.13  Aligned_cols=52  Identities=21%  Similarity=0.177  Sum_probs=32.2

Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHH
Q 012126          385 GFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEI  437 (470)
Q Consensus       385 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m  437 (470)
                      -|...|+++-|+++-++.+... +-+..+|..|..+|...|+++.|+-.++.+
T Consensus       346 FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            3445666666666666666532 223556666666677777777666666665

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.54  E-value=0.92  Score=45.22  Aligned_cols=128  Identities=14%  Similarity=0.154  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHcCC-chhHHHHHHHHHhCCCccCHHHH-H-HHHHHHHhcCCChhhHHHHHHHHHHC------CCC-CCHH
Q 012126          133 FTYLIKIYAESNL-PDRALKTFRSMLEFNCKPLPKQL-N-RILELLVTHRNYLRPAFDLFKSAHKH------GVL-PNTK  202 (470)
Q Consensus       133 ~~~li~~~~~~g~-~~~A~~~~~~~~~~~~~p~~~~~-~-~ll~~~~~~~~~~~~a~~~~~~~~~~------~~~-~~~~  202 (470)
                      ...++..+...++ .+.|+.+|+++....  |....+ . .++..+......--+|.+++.+..+.      ... .+..
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~  328 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDAD  328 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccc
Confidence            3445555555666 477899999887743  433322 2 22222221222223344444444321      111 1211


Q ss_pred             ----------HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 012126          203 ----------SYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDML  263 (470)
Q Consensus       203 ----------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  263 (470)
                                ..+.=.+.+...|+++-|+++-++....-+ -+-.+|..|..+|...|+++.|+-.+..+.
T Consensus       329 ~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aP-seF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          329 SARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELAL-DSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCc-hhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                      122223556678999999999999887643 368899999999999999999999888773

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=91.40  E-value=3.8  Score=37.46  Aligned_cols=67  Identities=10%  Similarity=0.058  Sum_probs=40.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH-----CCCCCCHHHH
Q 012126          347 LVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLK-----AGEAPHEDTW  414 (470)
Q Consensus       347 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~p~~~~~  414 (470)
                      ++.++...|+.+++...+..+.... +.+...+..+|.++.+.|+..+|++.|+.+.+     .|+.|+..+-
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            4555556666666666666665542 44556666666666666666666666665532     3666666543

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=91.28  E-value=2.1  Score=29.95  Aligned_cols=47  Identities=15%  Similarity=0.044  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhch
Q 012126          287 LREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMP  333 (470)
Q Consensus       287 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  333 (470)
                      .-+..+-++.+....+.|++....+.+++|.+.+++..|.++++.++
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK   72 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   72 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33344444444444444444444444444444444444444444443

>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=90.85  E-value=2.4  Score=38.76  Aligned_cols=95  Identities=21%  Similarity=0.112  Sum_probs=65.3

Q ss_pred             CCChHHHHHHHHHhhcC--CCCCCCH------------------HHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHH
Q 012126           72 QSDPLLAKEIFDYASRQ--PNFRHSN------------------STYLILILKLGRAKYFSLIDDILITLKSEHYPVTPS  131 (470)
Q Consensus        72 ~~~~~~a~~~~~~~~~~--~~~~~~~------------------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  131 (470)
                      .+++..|.+.++.+...  +.+-++.                  .....++..+.+.|+++++...+..+.... |.+..
T Consensus       128 ~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~  206 (388)
T 2ff4_A          128 AGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREP  206 (388)
T ss_dssp             TTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHH
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH
Confidence            57888888888877542  1111111                  112334555667788888888888877665 77888


Q ss_pred             HHHHHHHHHHHcCCchhHHHHHHHHHh-----CCCccCHHH
Q 012126          132 LFTYLIKIYAESNLPDRALKTFRSMLE-----FNCKPLPKQ  167 (470)
Q Consensus       132 ~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~p~~~~  167 (470)
                      .+..+|.++.+.|+..+|++.|+.+..     .|+.|+..+
T Consensus       207 ~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          207 LWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            888899999889998888888887643     467775544

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=90.50  E-value=5.8  Score=42.21  Aligned_cols=147  Identities=18%  Similarity=0.188  Sum_probs=100.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhC----CC---------------
Q 012126          277 LLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSN----GC---------------  337 (470)
Q Consensus       277 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~---------------  337 (470)
                      ++..+.+.+..+.+.++..-.     +.+...--.+..+|...|++++|.+.|.+.-..    +.               
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccc
Confidence            444455556655555433322     234444455667889999999999999875321    00               


Q ss_pred             ---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC
Q 012126          338 ---LPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHF----SVSHALIKGFCNVGKVDEACGVLEELLKAGEAPH  410 (470)
Q Consensus       338 ---~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~  410 (470)
                         ..-..-|..++..+.+.+.++.+.++-...++..-..+.    ..|..+...+...|++++|...+-.+.....  -
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r  970 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--K  970 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--C
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--H
Confidence               001234677888899999999999998887764322222    2678889999999999999999988876543  3


Q ss_pred             HHHHHHHHHHHHcCCcHHHH
Q 012126          411 EDTWVMIVPQICAGEEMEKL  430 (470)
Q Consensus       411 ~~~~~~l~~~~~~~g~~~~a  430 (470)
                      ......|+..+|+.|..+.-
T Consensus       971 ~~cLr~LV~~lce~~~~~~L  990 (1139)
T 4fhn_B          971 KSCLLDFVNQLTKQGKINQL  990 (1139)
T ss_dssp             HHHHHHHHHHHHHHCCHHHH
T ss_pred             HHHHHHHHHHHHhCCChhhh
Confidence            66778888888877665554

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=90.32  E-value=2.6  Score=31.36  Aligned_cols=46  Identities=15%  Similarity=0.129  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          359 VAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       359 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      +++.+++++.+.+..-....+-.+.-++.+.|++++|.+..+.+++
T Consensus        61 ~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           61 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             HHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            4455555554433111233344444455555555555555555554

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.77  E-value=13  Score=34.68  Aligned_cols=189  Identities=13%  Similarity=0.080  Sum_probs=103.9

Q ss_pred             CChhHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH----hcC
Q 012126          215 GDISIAYTLFNKMFER-----GVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLC----RKK  285 (470)
Q Consensus       215 g~~~~a~~~~~~m~~~-----~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~----~~~  285 (470)
                      |+++.|.+.+-.+.+.     +..-+......++..|...|+++...+.+..+.+..-. .......+++.+.    ...
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~q-lk~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQ-LKLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTT-SHHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHhcCC
Confidence            6788888777665532     23445666777888888889988887777665543222 2222333443332    222


Q ss_pred             CHHH--HHHHHHHHHH--cC-CCCC---HHHHHHHHHHHHhcCCHhHHHHHHHhchhC--CCCCC---HHHHHHHHHHHH
Q 012126          286 KLRE--AYKLLCRMKV--KG-CNPD---IVHYNTVVLGFCREGRAIDACKVLEDMPSN--GCLPN---LVSYRTLVGGLC  352 (470)
Q Consensus       286 ~~~~--a~~~~~~m~~--~~-~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~p~---~~~~~~li~~~~  352 (470)
                      ..+.  -..+.+.+..  .| +...   ......|...|...|++.+|.+++.++...  |....   ...+...++.|.
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            2221  1111111111  01 1111   112345667777788888888888776542  21111   234555666777


Q ss_pred             hcCChHHHHHHHHHHHH----CCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          353 DQGMFDVAKKYMQLMIS----KGFSPH--FSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       353 ~~g~~~~a~~~~~~~~~----~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      ..+++..|..+++++..    ....|+  ...+...+..+...+++.+|...|.+..+
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            77888888877777642    111222  23455566666777777777777666644

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=89.47  E-value=5.5  Score=30.06  Aligned_cols=67  Identities=15%  Similarity=0.072  Sum_probs=36.5

Q ss_pred             CCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          338 LPNLVSYRTLVGGLCDQGM---FDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       338 ~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      .|+..+--.+..++.+..+   ..+++.+++++.+.+..-.....-.+.-++.+.|++++|.++.+.+++
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            3455444445555555443   335666666666543222333444455566666666666666666666

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=88.87  E-value=24  Score=37.46  Aligned_cols=168  Identities=13%  Similarity=0.041  Sum_probs=96.9

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHh
Q 012126           98 YLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVT  177 (470)
Q Consensus        98 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~  177 (470)
                      ...++..+...+..+.+.++...+.     .++..--.+..+|..+|++++|.+.|.+.-. |+..+..           
T Consensus       815 ~~~l~~~l~~~~~~~~~~~l~~~~~-----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~-----------  877 (1139)
T 4fhn_B          815 VTELVEKLFLFKQYNACMQLIGWLN-----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTS-----------  877 (1139)
T ss_dssp             HHHHHHHHHHHSCTTHHHHHHHHSC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCC-----------
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcc-----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccch-----------
Confidence            3456777888899988888766543     3444445577888999999999999987532 1111100           


Q ss_pred             cCCChhhHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHHcCC
Q 012126          178 HRNYLRPAFDLFKSAHKHG--VLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPD----VESYRILMQGLCRKSQ  251 (470)
Q Consensus       178 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~  251 (470)
                         .... ..-+..+....  ...-..-|..++..+-+.|.++.+.++-...++....-+    ...|..+.+++...|+
T Consensus       878 ---l~~~-~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~  953 (1139)
T 4fhn_B          878 ---QFAV-LREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGK  953 (1139)
T ss_dssp             ---SCSS-HHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCC
T ss_pred             ---hhhh-hcccccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCC
Confidence               0000 00011111111  111234466677777777777777777666554321111    1246677778888888


Q ss_pred             hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHH
Q 012126          252 VNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLR  288 (470)
Q Consensus       252 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  288 (470)
                      +++|...+-.+.....+  ......|+...|..|..+
T Consensus       954 ye~Ay~aL~~~pd~~~r--~~cLr~LV~~lce~~~~~  988 (1139)
T 4fhn_B          954 FDAAHVALMVLSTTPLK--KSCLLDFVNQLTKQGKIN  988 (1139)
T ss_dssp             SGGGGHHHHHHHHSSSC--HHHHHHHHHHHHHHCCHH
T ss_pred             HHHHHHHHHhCCCHHHH--HHHHHHHHHHHHhCCChh
Confidence            88888777777655433  334555555555555433

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=88.83  E-value=23  Score=36.32  Aligned_cols=271  Identities=13%  Similarity=0.067  Sum_probs=140.1

Q ss_pred             hcCCChHHHHHHHHHhhcCCCCCCCHHHHH--HHHHHHHccCCchHHHHHHHHHhhCCC--CC---CHHHH--HHHHHHH
Q 012126           70 ASQSDPLLAKEIFDYASRQPNFRHSNSTYL--ILILKLGRAKYFSLIDDILITLKSEHY--PV---TPSLF--TYLIKIY  140 (470)
Q Consensus        70 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~---~~~~~--~~li~~~  140 (470)
                      ...++.+.++.+++......+ ..+..+-.  .+.-.++..|..+++..++.......-  .-   ++.+.  ..+.-+.
T Consensus       385 Ih~g~~~~gl~~L~~yL~~~~-s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          385 IHKGNLLEGKKVMAPYLPGSR-ASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HTSSCTTTHHHHHTTTSTTSC-CSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hccCchHHHHHHHHHhccccC-CCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            356777778777776543211 12333322  223334555665677776666554321  00   12111  2232233


Q ss_pred             HHcCC-chhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHH--HHHHHHHHhcCCh
Q 012126          141 AESNL-PDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSY--NIMMRAFCFNGDI  217 (470)
Q Consensus       141 ~~~g~-~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~li~~~~~~g~~  217 (470)
                      +-.|. -+++.+.+..+....-..........+..+....++-+....++..+.+..   +....  ..+.-++...|+.
T Consensus       464 a~~GS~~eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCG
T ss_pred             HhcCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCCh
Confidence            33343 246667776666532110011112223333334455566677777666532   33333  3333445578999


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHH---HHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 012126          218 SIAYTLFNKMFERGVMPDVESYR---ILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLL  294 (470)
Q Consensus       218 ~~a~~~~~~m~~~~~~p~~~~~~---~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  294 (470)
                      +.+..+.+.+.... .| ..-|.   ++.-+|+..|+.....+++..+.... ..++.-...+.-++...|+.+.+.+++
T Consensus       541 e~~~~li~~L~~~~-dp-~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          541 ELADDLITKMLASD-ES-LLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGGHHHHHHHHHCS-CH-HHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             HHHHHHHHHHHhCC-CH-HHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            99999988887642 22 22222   23346778889888877998888652 223332222233344467767777787


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCH-hHHHHHHHhchhCCCCCCHHHHHHHHHHH
Q 012126          295 CRMKVKGCNPDIVHYNTVVLGFCREGRA-IDACKVLEDMPSNGCLPNLVSYRTLVGGL  351 (470)
Q Consensus       295 ~~m~~~~~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~li~~~  351 (470)
                      +.+.+.+ .|.+.--.++..+....|.. .++++++..+...   +|..+-...+.++
T Consensus       618 ~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D---~d~~Vrq~Ai~AL  671 (963)
T 4ady_A          618 QLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKD---PVDFVRQAAMIAL  671 (963)
T ss_dssp             TTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTC---SSHHHHHHHHHHH
T ss_pred             HHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccC---CCHHHHHHHHHHH
Confidence            7776653 44444444444455555554 5788888888753   4544443333333

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=88.80  E-value=3.7  Score=30.54  Aligned_cols=47  Identities=15%  Similarity=0.056  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          288 REAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       288 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      -+..+-++.+....+.|++....+.+++|.+.+++..|.++|+-++.
T Consensus        70 wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~  116 (152)
T 2y69_E           70 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD  116 (152)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            33444444444444445555555555555555555555555544443

>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=87.64  E-value=16  Score=33.22  Aligned_cols=241  Identities=7%  Similarity=0.040  Sum_probs=117.6

Q ss_pred             HHHHHHHHHHHcCCchhHHHHHHHHHhC-CCcc---CHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHH---
Q 012126          132 LFTYLIKIYAESNLPDRALKTFRSMLEF-NCKP---LPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSY---  204 (470)
Q Consensus       132 ~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~p---~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---  204 (470)
                      ....|...|.+.|+.++..+++...... +..|   .......++..+....+..+.-.++..+..+..-. +..+|   
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~r~flr~   99 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQ-EKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH-TTCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence            3445566666666666666665554321 1111   12233444555544444444444444443321100 11122   


Q ss_pred             ---HHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHHcCChHHHHHHHHHHHhC--CCCCCHhhH
Q 012126          205 ---NIMMRAFCFNGDISIAYTLFNKMFERGVMPD-----VESYRILMQGLCRKSQVNRAVDLLEDMLNK--GFVPDTLSY  274 (470)
Q Consensus       205 ---~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~  274 (470)
                         ..++..|...|++.+|.+++.++.+.--..|     ..++..-+..|...+++.++...+......  .+.+++...
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~  179 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ  179 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH
Confidence               2577888888888888888888766421112     334555667788888888888888776542  122333332


Q ss_pred             HHH----HHHHH-hcCCHHHHHHHHHHHHHc-CC--CC---CHHHHHHHHHHHHhcCCHhHHHHHHH-hchhCCCCCCHH
Q 012126          275 TTL----LNSLC-RKKKLREAYKLLCRMKVK-GC--NP---DIVHYNTVVLGFCREGRAIDACKVLE-DMPSNGCLPNLV  342 (470)
Q Consensus       275 ~~l----l~~~~-~~~~~~~a~~~~~~m~~~-~~--~~---~~~~~~~li~~~~~~~~~~~a~~~~~-~m~~~~~~p~~~  342 (470)
                      ..+    .-++. ..+++..|...|-+..+. ..  .|   +...|..+....  .++..+.-.++. +....-..|...
T Consensus       180 a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~~~~~~~~~~~lkYlvL~aLl--~~~r~el~~~l~~~~~~~~~~pei~  257 (394)
T 3txn_A          180 GALDLQSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLCKIM--LGQSDDVNQLVSGKLAITYSGRDID  257 (394)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH--TTCGGGHHHHHHSHHHHTTCSHHHH
T ss_pred             HHHHHHhhHHHHHhccCHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHH--cCCHHHHHHHhccccccccCCccHH
Confidence            221    12344 678888887777655321 10  01   122232222222  233233323221 111111235555


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH
Q 012126          343 SYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFS  377 (470)
Q Consensus       343 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  377 (470)
                      .+..++.+|. .+++.+...+++.... .+..|..
T Consensus       258 ~l~~L~~a~~-~~dl~~f~~iL~~~~~-~l~~D~~  290 (394)
T 3txn_A          258 AMKSVAEASH-KRSLADFQAALKEYKK-ELAEDVI  290 (394)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHSTT-TTTTSHH
T ss_pred             HHHHHHHHHH-hCCHHHHHHHHHHHHH-HHhcChH
Confidence            5666666543 4667666666655432 2444543

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=86.99  E-value=16  Score=32.34  Aligned_cols=19  Identities=0%  Similarity=-0.108  Sum_probs=14.3

Q ss_pred             HHcCCcHHHHHHHHHHHHH
Q 012126          421 ICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       421 ~~~~g~~~~a~~~~~~m~~  439 (470)
                      |...++...|..+++...+
T Consensus       197 yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          197 YLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHH
Confidence            6667788888887777664

>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=85.96  E-value=7.3  Score=29.00  Aligned_cols=65  Identities=8%  Similarity=0.082  Sum_probs=31.6

Q ss_pred             CCHHHHHHHHHHHHccCC---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Q 012126          374 PHFSVSHALIKGFCNVGK---VDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIV  438 (470)
Q Consensus       374 ~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  438 (470)
                      |+..+--.+..++++..+   ..+++.++++..+.+..-....+-.|.-++.+.|++++|.++.+.++
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL  105 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF  105 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            444444444444444433   33455555555544311123344445555566666666666666655

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=85.61  E-value=7.4  Score=27.29  Aligned_cols=47  Identities=13%  Similarity=0.124  Sum_probs=29.1

Q ss_pred             hHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 012126          184 PAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFER  230 (470)
Q Consensus       184 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  230 (470)
                      +..+-+..+...+..|++....+.+++|.+.+++..|.++|+-.+.+
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34444455555556666666666666666666666666666665544

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=84.75  E-value=20  Score=31.61  Aligned_cols=167  Identities=10%  Similarity=0.031  Sum_probs=90.2

Q ss_pred             HHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCC----hhhHHHHHHHHHHCCCCCCHHHHHHH
Q 012126          132 LFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNY----LRPAFDLFKSAHKHGVLPNTKSYNIM  207 (470)
Q Consensus       132 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~----~~~a~~~~~~~~~~~~~~~~~~~~~l  207 (470)
                      .|.++..-|.+.+++++|++++..-..           .++     ..++    .|.+.-+++...+.++++|......+
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~GA~-----------~ll-----~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL  100 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILASVSQ-----------TLL-----RSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKL  100 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH-----------HHH-----HTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHH-----------HHH-----HCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            345566667788888888887654211           000     1111    23444445555566777777777777


Q ss_pred             HHHHHhcCChhH-HHHHHHHHHH----CC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 012126          208 MRAFCFNGDISI-AYTLFNKMFE----RG--VMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNS  280 (470)
Q Consensus       208 i~~~~~~g~~~~-a~~~~~~m~~----~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  280 (470)
                      +..+.....-+- =.++.+++++    .|  ..-|......+...|.+.+++.+|...|-    .|-.++...|..++--
T Consensus       101 ~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i----lg~~~s~~~~a~mL~e  176 (336)
T 3lpz_A          101 LGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV----LGTKESPEVLARMEYE  176 (336)
T ss_dssp             HHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT----TSCTTHHHHHHHHHHH
T ss_pred             HHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH----hcCCchHHHHHHHHHH
Confidence            777766554221 1223333321    12  23366777788888999999888887762    2334333566555544


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhch
Q 012126          281 LCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMP  333 (470)
Q Consensus       281 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  333 (470)
                      +...+...              .++...-.+++ .|.-.++...|..+++...
T Consensus       177 w~~~~~~~--------------e~dlfiaRaVL-~yL~l~n~~~A~~~~~~f~  214 (336)
T 3lpz_A          177 WYKQDESH--------------TAPLYCARAVL-PYLLVANVRAANTAYRIFT  214 (336)
T ss_dssp             HHHTSCGG--------------GHHHHHHHHHH-HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhcCCc--------------cHHHHHHHHHH-HHHHhCCHHHHHHHHHHHH
Confidence            44433211              11222223333 3455667777776655544

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=84.63  E-value=0.0023  Score=59.00  Aligned_cols=198  Identities=12%  Similarity=0.072  Sum_probs=113.2

Q ss_pred             HHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHc
Q 012126           64 RVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAES  143 (470)
Q Consensus        64 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  143 (470)
                      .+++.....+...+|++-|=.+       .|+..|..+|.++.+.|.+++....+...++..  .++.+=+.|+-+|++.
T Consensus        59 ~LgkAqL~~~~v~eAIdsyIkA-------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayAk~  129 (624)
T 3lvg_A           59 QLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKT  129 (624)
T ss_dssp             SHHHHTTTSSSCTTTTTSSCCC-------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHHTS
T ss_pred             HHHHHHHccCchHHHHHHHHhC-------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHHhh
Confidence            4566666667666665543222       244568888888999999999888887666553  3445557788899998


Q ss_pred             CCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCC--------------------CCCCHHH
Q 012126          144 NLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHG--------------------VLPNTKS  203 (470)
Q Consensus       144 g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~~~~~  203 (470)
                      ++..+-.+++.       .|+......+-..|. ..|.++.|.-+|..+....                    -.-+..|
T Consensus       130 ~rL~elEefl~-------~~N~A~iq~VGDrcf-~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          130 NRLAELEEFIN-------GPNNAHIQQVGDRCY-DEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             CSSSTTTSTTS-------CCSSSCTHHHHHHHH-HSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             CcHHHHHHHHc-------CCCcccHHHHHHHHH-HccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            88766444332       244444444445555 3333555555554332110                    0124556


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 012126          204 YNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR  283 (470)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  283 (470)
                      |-.+-.+|...+++..|.-.--.++-.     ..-...++..|-..|.+++.+.+++.-... -......|+-|.-.|++
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniIvh-----adeL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsK  275 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIVVH-----ADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSK  275 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHHCC-----SSCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhccc-----HHHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHh
Confidence            666666666666666654433333322     112223455566667777777766665422 12355666666666665


Q ss_pred             c
Q 012126          284 K  284 (470)
Q Consensus       284 ~  284 (470)
                      -
T Consensus       276 Y  276 (624)
T 3lvg_A          276 F  276 (624)
T ss_dssp             S
T ss_pred             c
Confidence            4

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=84.51  E-value=15  Score=31.29  Aligned_cols=55  Identities=16%  Similarity=0.222  Sum_probs=41.6

Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          245 GLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       245 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      ...+.|+++++++....-++..+. |...-..++..+|-.|+++.|..-++...+.
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P~-da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            345677888888888777777654 7777777888888888888888888777665

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=83.07  E-value=13  Score=28.06  Aligned_cols=66  Identities=8%  Similarity=0.087  Sum_probs=32.2

Q ss_pred             CCHHHHHHHHHHHHccCC---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 012126          374 PHFSVSHALIKGFCNVGK---VDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVK  439 (470)
Q Consensus       374 ~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  439 (470)
                      |+..+--.+..++++..+   ..+++.+++++.+.+..-.....-.|.-++.+.|++++|.++.+.+++
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            444444444444544443   334555555555433211223334444455666666666666666653

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=82.96  E-value=23  Score=30.93  Aligned_cols=66  Identities=9%  Similarity=-0.069  Sum_probs=37.0

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHH----------------HHHHC--CCCCCHHHH--HHHHHHHHcCCcHHHHHHH
Q 012126          374 PHFSVSHALIKGFCNVGKVDEACGVLE----------------ELLKA--GEAPHEDTW--VMIVPQICAGEEMEKLGEV  433 (470)
Q Consensus       374 ~~~~~~~~li~~~~~~g~~~~a~~~~~----------------~~~~~--~~~p~~~~~--~~l~~~~~~~g~~~~a~~~  433 (470)
                      .++.....+...|.+.|++.+|+..|-                ...+.  |.+-+...|  ..++ -|.-.|+...|..+
T Consensus       132 Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~~~e~dlf~~RaVL-~yL~l~n~~~A~~~  210 (312)
T 2wpv_A          132 GDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIEDSTVAEFFSRLVF-NYLFISNISFAHES  210 (312)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHH-HHHHTTBHHHHHHH
T ss_pred             CCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHH-HHHHhcCHHHHHHH
Confidence            355666666677777777777666441                11111  321112222  2222 36678899999999


Q ss_pred             HHHHHHc
Q 012126          434 LNEIVKV  440 (470)
Q Consensus       434 ~~~m~~~  440 (470)
                      ++...+.
T Consensus       211 ~~~f~~~  217 (312)
T 2wpv_A          211 KDIFLER  217 (312)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8877543

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=82.64  E-value=13  Score=27.70  Aligned_cols=58  Identities=16%  Similarity=0.193  Sum_probs=33.9

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012126          185 AFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILM  243 (470)
Q Consensus       185 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  243 (470)
                      ..+-+..+...++.|++....+.+++|.+.+++..|.++|+-.+.+- .+...+|..++
T Consensus        72 lrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~l  129 (152)
T 2y69_E           72 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHH
Confidence            34444444555666677777777777777777777777776665542 22334455444

>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=81.43  E-value=13  Score=29.98  Aligned_cols=58  Identities=19%  Similarity=0.109  Sum_probs=45.1

Q ss_pred             cCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH
Q 012126          354 QGMFDVAKKYMQLMISKGFSPH-FSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHE  411 (470)
Q Consensus       354 ~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~  411 (470)
                      .++...+..+|..|..+|+-.. ...|......+...|++.+|.++|+.-++.+-.|-.
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~~  150 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPYN  150 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHH
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccHH
Confidence            4446788899999988876544 456777788888899999999999998888777643

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=81.02  E-value=0.01  Score=54.81  Aligned_cols=212  Identities=14%  Similarity=0.109  Sum_probs=112.3

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 012126          201 TKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNS  280 (470)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  280 (470)
                      ..+|..|.+++...+.+.+|++-|-+   .+   |...|..++.+..+.|.+++-+..+...++. .+ +...=+.|+-+
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyIk---A~---Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~-~k-e~~IDteLi~a  125 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYIK---AD---DPSSYMEVVQAANTSGNWEELVKYLQMARKK-AR-ESYVETELIFA  125 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSCC---CS---CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT-CC-STTTTHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHHh---CC---ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-hc-ccccHHHHHHH
Confidence            34566677777777766666654421   11   4455666777777777777777766554443 22 44455567777


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCC--------------------CCCC
Q 012126          281 LCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNG--------------------CLPN  340 (470)
Q Consensus       281 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------------------~~p~  340 (470)
                      |++.++..+-++++       ..|+..-...+.+-|...|.++.|.-+|..+....                    -.-+
T Consensus       126 yAk~~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns  198 (624)
T 3lvg_A          126 LAKTNRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANS  198 (624)
T ss_dssp             HHTSCSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCS
T ss_pred             HHhhCcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            77766654432222       12444444455555555555555555554432110                    0124


Q ss_pred             HHHHHHHHHHHHhcCChH------------------------------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 012126          341 LVSYRTLVGGLCDQGMFD------------------------------VAKKYMQLMISKGFSPHFSVSHALIKGFCNVG  390 (470)
Q Consensus       341 ~~~~~~li~~~~~~g~~~------------------------------~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  390 (470)
                      ..||-.+-.+|...+++.                              +.+.+++.-... -.....+|+-|.-.|++- 
T Consensus       199 ~ktWKeV~~ACvd~~EfrLAqicGLniIvhadeL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsKY-  276 (624)
T 3lvg_A          199 TRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF-  276 (624)
T ss_dssp             SCSHHHHTHHHHHSCTTTTTTHHHHHHHCCSSCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHSS-
T ss_pred             hhHHHHHHHHHhCchHHHHHHHhcchhcccHHHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHhc-
Confidence            456666666666555544                              444444433321 123455666666666655 


Q ss_pred             CHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHcCCcHHHHHHHHHH
Q 012126          391 KVDEACGVLEELLKA-GEAPHEDTWVMIVPQICAGEEMEKLGEVLNE  436 (470)
Q Consensus       391 ~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  436 (470)
                      ++++..+.++..-.+ ++       -.+|++|.+..-|.++.-++..
T Consensus       277 ~PeKlmEHlklf~sriNi-------pKviracE~ahLW~ElvfLY~~  316 (624)
T 3lvg_A          277 KPQKMREHLELFWSRVNI-------PKVLRAAEQAHLWAELVFLYDK  316 (624)
T ss_dssp             CTTHHHHHHTTSSSSSCC-------TTTHHHHTTTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhccH-------HHHHHHHHHHhhHHHHHHHHhc
Confidence            344444444332211 22       1467777777777777766653

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.61  E-value=21  Score=32.97  Aligned_cols=99  Identities=14%  Similarity=0.023  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---CCCCCCHhh--H
Q 012126          202 KSYNIMMRAFCFNGDISIAYTLFNKMFERG--VMPDVESYRILMQGLCRKSQVNRAVDLLEDMLN---KGFVPDTLS--Y  274 (470)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~--~  274 (470)
                      .+...+...|.+.|+++.|.+.|.++.+..  ..--...+-..++.+...+++..+...+.++..   .+..++...  .
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            356778899999999999999999998753  233456777788899999999999999888753   232222211  0


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          275 TTLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       275 ~~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      ..-...+...+++..|...|-+....
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhcc
Confidence            11111233568899888888776543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=80.43  E-value=9.6  Score=29.64  Aligned_cols=24  Identities=8%  Similarity=-0.006  Sum_probs=12.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHH
Q 012126          344 YRTLVGGLCDQGMFDVAKKYMQLM  367 (470)
Q Consensus       344 ~~~li~~~~~~g~~~~a~~~~~~~  367 (470)
                      +..+.+++...+++..|...|+..
T Consensus        66 l~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           66 LVYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHH
Confidence            334445555555555555555554

---

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	470
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.88
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.62
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.61
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.27
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.26
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.23
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.23
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.2
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.18
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.11
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.08
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.04
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.02
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.72
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.64
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.58
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.58
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.56
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.52
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.48
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.43
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.39
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.39
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.38
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.35
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.3
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.29
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.23
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.21
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.08
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.05
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.02
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.95
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.93
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.91
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.9
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.9
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.78
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.76
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.72
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.67
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.65
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.64
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.64
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.62
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.49
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.48
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.41
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.41
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.2
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.95
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.8
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.69
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.41
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.4
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.17
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.71
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	94.62
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.08
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	91.24
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	91.04
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	89.04

>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=99.92  E-value=4.8e-21  Score=177.34  Aligned_cols=368  Identities=13%  Similarity=0.045  Sum_probs=294.3

Q ss_pred             HHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC
Q 012126           65 VQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESN  144 (470)
Q Consensus        65 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  144 (470)
                      ++...-+.|+++.|++.|+.+.+..  |.+...+..+...+.+.|++++|...++.+.+.. |.+..++..+..+|...|
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g   81 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE--PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERG   81 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhc
Confidence            4566778899999999999987654  4578889999999999999999999999998875 668899999999999999


Q ss_pred             CchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHH
Q 012126          145 LPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLF  224 (470)
Q Consensus       145 ~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  224 (470)
                      ++++|++.+......... +............ .......+............ ................+....+...+
T Consensus        82 ~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (388)
T d1w3ba_          82 QLQEAIEHYRHALRLKPD-FIDGYINLAAALV-AAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACY  158 (388)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH-HHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHH
T ss_pred             cccccccccccccccccc-ccccccccccccc-cccccccccccccccccccc-ccccccccccccccccchhhhhHHHH
Confidence            999999999998875422 2222222222222 33334555555555544333 34555666667777888888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 012126          225 NKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNP  304 (470)
Q Consensus       225 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~  304 (470)
                      ......... +...+..+...+...|++++|...+++..+.... +..++..+...+...|++++|...+++....+ ..
T Consensus       159 ~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~  235 (388)
T d1w3ba_         159 LKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PN  235 (388)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TT
T ss_pred             HHhhccCcc-hhHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hh
Confidence            887776433 6778888888999999999999999998876544 67788889999999999999999999988764 34


Q ss_pred             CHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          305 DIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIK  384 (470)
Q Consensus       305 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  384 (470)
                      +...+..+...+.+.|++++|+..|++..+.. +-+...+..+...+...|++++|.+.++...... +.+...+..+..
T Consensus       236 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  313 (388)
T d1w3ba_         236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLAN  313 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHH
Confidence            66778888899999999999999999988753 2356788889999999999999999999988763 567788889999


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCc
Q 012126          385 GFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDT  446 (470)
Q Consensus       385 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  446 (470)
                      .+...|++++|.+.|++.++... -+..+|..+..+|.+.|++++|.+.++++++  +.|+.
T Consensus       314 ~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~  372 (388)
T d1w3ba_         314 IKREQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTF  372 (388)
T ss_dssp             HHHTTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTC
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCC
Confidence            99999999999999999987542 2567888999999999999999999999985  45654

>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=99.88  E-value=8.3e-19  Score=162.08  Aligned_cols=352  Identities=14%  Similarity=0.039  Sum_probs=287.8

Q ss_pred             hHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 012126           62 PCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYA  141 (470)
Q Consensus        62 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  141 (470)
                      ...++.++...|++++|+..|+.+.+..  +.+..++..+...+.+.|++++|...+....... +..............
T Consensus        36 ~~~la~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~  112 (388)
T d1w3ba_          36 LLLLSSIHFQCRRLDRSAHFSTLAIKQN--PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALV  112 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHhhhhccccccccccccccccc-ccccccccccccccc
Confidence            3456678889999999999999987654  4568899999999999999999999999998875 556677777777777


Q ss_pred             HcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHH
Q 012126          142 ESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAY  221 (470)
Q Consensus       142 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  221 (470)
                      ..+....+....................  ........+....+...+........ -+...+..+...+...|++++|.
T Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~  189 (388)
T d1w3ba_         113 AAGDMEGAVQAYVSALQYNPDLYCVRSD--LGNLLKALGRLEEAKACYLKAIETQP-NFAVAWSNLGCVFNAQGEIWLAI  189 (388)
T ss_dssp             HHSCSSHHHHHHHHHHHHCTTCTHHHHH--HHHHHHTTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHH
T ss_pred             cccccccccccccccccccccccccccc--ccccccccchhhhhHHHHHHhhccCc-chhHHHHhhcccccccCcHHHHH
Confidence            7788888777777666543333332222  22233355557778888877776543 26788888999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 012126          222 TLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKG  301 (470)
Q Consensus       222 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  301 (470)
                      ..+++..+.... +...+..+...+...|++++|+..++.....+.. +...+..+...+.+.|++++|...|++..+..
T Consensus       190 ~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  267 (388)
T d1w3ba_         190 HHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ  267 (388)
T ss_dssp             HHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            999999887543 6788899999999999999999999999887544 67788889999999999999999999998763


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 012126          302 CNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHA  381 (470)
Q Consensus       302 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  381 (470)
                       +-+..++..+...+...|++++|.+.++..... .+.+...+..+...+...|++++|...+++.++.. +-+..++..
T Consensus       268 -p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  344 (388)
T d1w3ba_         268 -PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSN  344 (388)
T ss_dssp             -SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence             335778899999999999999999999998775 34577888889999999999999999999998853 345778899


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHcCCc
Q 012126          382 LIKGFCNVGKVDEACGVLEELLKAGEAP-HEDTWVMIVPQICAGEE  426 (470)
Q Consensus       382 li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~  426 (470)
                      +..+|.+.|++++|.+.|++.++..  | +...|..+..+|.+.||
T Consensus       345 la~~~~~~g~~~~A~~~~~~al~l~--P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         345 LASVLQQQGKLQEALMHYKEAIRIS--PTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHTTTCCHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCC
Confidence            9999999999999999999998854  4 57789999999988775

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=4.7e-13  Score=119.97  Aligned_cols=244  Identities=15%  Similarity=0.037  Sum_probs=140.9

Q ss_pred             hHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 012126           62 PCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYA  141 (470)
Q Consensus        62 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  141 (470)
                      ....+..+...|+++.|+..|+.+.+..  |.+...|..+...+...|++++|...+.+..+.. |.+...+..+...|.
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~   98 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQD--PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFT   98 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccc
Confidence            4556778889999999999999998765  4578899999999999999999999999988775 667889999999999


Q ss_pred             HcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHH
Q 012126          142 ESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAY  221 (470)
Q Consensus       142 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  221 (470)
                      ..|++++|.+.++......  |+.............                    ..+.......+..+...+.+.+|.
T Consensus        99 ~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~a~  156 (323)
T d1fcha_          99 NESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAG--------------------GAGLGPSKRILGSLLSDSLFLEVK  156 (323)
T ss_dssp             HTTCHHHHHHHHHHHHHTS--TTTGGGCC-----------------------------------CTTHHHHHHHHHHHHH
T ss_pred             ccccccccccchhhHHHhc--cchHHHHHhhhhhhh--------------------hcccccchhhHHHHHHhhHHHHHH
Confidence            9999999999999987632  321110000000000                    000001111111222333344444


Q ss_pred             HHHHHHHHCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 012126          222 TLFNKMFERGV-MPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       222 ~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  300 (470)
                      +.|.+..+... ..+..++..+...+...|++++|+..|++....... +..+|..+..+|.+.|++++|.+.|++..+.
T Consensus       157 ~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  235 (323)
T d1fcha_         157 ELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALEL  235 (323)
T ss_dssp             HHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHH
Confidence            44444433221 123344444444555555555555555554443322 3444444555555555555555555554443


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhc
Q 012126          301 GCNPDIVHYNTVVLGFCREGRAIDACKVLEDM  332 (470)
Q Consensus       301 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  332 (470)
                      . +-+..+|..+..+|.+.|++++|+..|++.
T Consensus       236 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a  266 (323)
T d1fcha_         236 Q-PGYIRSRYNLGISCINLGAHREAVEHFLEA  266 (323)
T ss_dssp             C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             h-hccHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            1 112344444555555555555555555444

>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=99.61  E-value=2.2e-13  Score=122.20  Aligned_cols=227  Identities=12%  Similarity=0.027  Sum_probs=129.2

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 012126          210 AFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLRE  289 (470)
Q Consensus       210 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  289 (470)
                      .+.+.|++++|...|++.++..+. +..+|..+..++...|++++|+..|.+..+..+. +...+..+..+|...|++++
T Consensus        28 ~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~  105 (323)
T d1fcha_          28 RRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQ  105 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccccccc
Confidence            344445555555555554444322 3444444444555555555555555444443322 33444444444455555555


Q ss_pred             HHHHHHHHHHcCCC--------------CCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCC-CCCCHHHHHHHHHHHHhc
Q 012126          290 AYKLLCRMKVKGCN--------------PDIVHYNTVVLGFCREGRAIDACKVLEDMPSNG-CLPNLVSYRTLVGGLCDQ  354 (470)
Q Consensus       290 a~~~~~~m~~~~~~--------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~  354 (470)
                      |.+.++........              .+.......+..+...+.+.+|...+.+..+.. -..+...+..+...+...
T Consensus       106 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~  185 (323)
T d1fcha_         106 ACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLS  185 (323)
T ss_dssp             HHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHT
T ss_pred             cccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHH
Confidence            55555444432100              000001111222334455666777776655432 123456677777777788


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHH
Q 012126          355 GMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVL  434 (470)
Q Consensus       355 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  434 (470)
                      |++++|...+++..+.. +-+..+|..+..+|...|++++|.+.|++.++... -+...|..+..+|.+.|++++|++.|
T Consensus       186 ~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~  263 (323)
T d1fcha_         186 GEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRSRYNLGISCINLGAHREAVEHF  263 (323)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhh-ccHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            88888888888877653 33566777778888888888888888888776432 25667777888888888888888888


Q ss_pred             HHHHHc
Q 012126          435 NEIVKV  440 (470)
Q Consensus       435 ~~m~~~  440 (470)
                      ++.++.
T Consensus       264 ~~al~l  269 (323)
T d1fcha_         264 LEALNM  269 (323)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            888753

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=2.2e-09  Score=94.91  Aligned_cols=197  Identities=6%  Similarity=0.016  Sum_probs=107.7

Q ss_pred             HHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC-chhHHHHHHHHHhCCCccCHHHHHHHHHH
Q 012126           96 STYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNL-PDRALKTFRSMLEFNCKPLPKQLNRILEL  174 (470)
Q Consensus        96 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~~~~~p~~~~~~~ll~~  174 (470)
                      ..|..+...+.+.+.+++|.++++.+++.. |-+..+|+....++...|. +++|+..++..++                
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~----------------  106 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIE----------------  106 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH----------------
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHH----------------
Confidence            345555555556666666666666666654 4555566666555555443 5555555555544                


Q ss_pred             HHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHH
Q 012126          175 LVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNR  254 (470)
Q Consensus       175 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  254 (470)
                                          .... +..+|+.+...+.+.|++++|++.++++.+.... +...|..+...+...|++++
T Consensus       107 --------------------~~p~-~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~  164 (315)
T d2h6fa1         107 --------------------EQPK-NYQVWHHRRVLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDN  164 (315)
T ss_dssp             --------------------HCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTT
T ss_pred             --------------------HHHh-hhhHHHHHhHHHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHH
Confidence                                3222 4555666666666666666666666666655433 55666666666666666666


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHH
Q 012126          255 AVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKK------LREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKV  328 (470)
Q Consensus       255 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  328 (470)
                      |++.++++++.++. +...|+.+..++.+.+.      +++|.+.+....+.. +.+...|+.+...+. ....+++.+.
T Consensus       165 Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~-~~~~~~~~~~  241 (315)
T d2h6fa1         165 ELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQ-DRGLSKYPNL  241 (315)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT-TTCGGGCHHH
T ss_pred             HHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHH-hcChHHHHHH
Confidence            66666666665433 45555555444444333      455666666555542 224445554444332 3334555555


Q ss_pred             HHhchh
Q 012126          329 LEDMPS  334 (470)
Q Consensus       329 ~~~m~~  334 (470)
                      ++...+
T Consensus       242 ~~~~~~  247 (315)
T d2h6fa1         242 LNQLLD  247 (315)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555444

>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=99.26  E-value=2.1e-09  Score=95.06  Aligned_cols=211  Identities=9%  Similarity=0.027  Sum_probs=155.8

Q ss_pred             HHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 012126          172 LELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNG-DISIAYTLFNKMFERGVMPDVESYRILMQGLCRKS  250 (470)
Q Consensus       172 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  250 (470)
                      ++.+....+.+++|+++++++++..+. +...|+....++...| ++++|+..+++..+.... +..+|..+...+.+.|
T Consensus        49 ~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~~~~l~  126 (315)
T d2h6fa1          49 FRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLR  126 (315)
T ss_dssp             HHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHHHHhhc
Confidence            344444555567777777777765543 7778888888888766 589999999999887655 7889999999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC------HhH
Q 012126          251 QVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGR------AID  324 (470)
Q Consensus       251 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~------~~~  324 (470)
                      ++++|++.+.++.+.... +..+|..+..++.+.|++++|+..++.+.+.. +-+...|+.+...+.+.+.      +++
T Consensus       127 ~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~~~~~  204 (315)
T d2h6fa1         127 DPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLER  204 (315)
T ss_dssp             CCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHH
T ss_pred             cHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhhhhHH
Confidence            999999999999987655 78899999999999999999999999998874 3356778777766666655      567


Q ss_pred             HHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHc
Q 012126          325 ACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFS-PHFSVSHALIKGFCN  388 (470)
Q Consensus       325 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~  388 (470)
                      |+..+....+.. +-+...|..+...+. ....+++.+.++...+.... .+...+..++..|..
T Consensus       205 ai~~~~~al~~~-P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         205 EVQYTLEMIKLV-PHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhC-CCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence            888888877753 235666666655544 44467788888877764322 244556666666543

>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=99.23  E-value=5.2e-09  Score=92.32  Aligned_cols=188  Identities=12%  Similarity=0.081  Sum_probs=131.2

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHH
Q 012126          251 QVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLE  330 (470)
Q Consensus       251 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  330 (470)
                      ..++|..+|++.++...+.+...|...+..+.+.|+.+.|..+|+++.+.........|...+..+.+.|+.+.|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            35677778877776544445566777777777888888888888887765322234467777888888888888888888


Q ss_pred             hchhCCCCCCHHHHHHHHHH-HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC-CC
Q 012126          331 DMPSNGCLPNLVSYRTLVGG-LCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAG-EA  408 (470)
Q Consensus       331 ~m~~~~~~p~~~~~~~li~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~  408 (470)
                      .+.+.+. .+...|...... +...|+.+.|..+|+.+.+. .+.+...|..++..+.+.|+++.|..+|++.++.. ..
T Consensus       159 ~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            8776542 233334333332 33457888888888888875 34567788888888888888888888888887753 22


Q ss_pred             CC--HHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          409 PH--EDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       409 p~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                      |+  ...|...+..-...|+.+.+..+.+++.+.
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            22  346777777667778888888888877653

>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=99.23  E-value=7.7e-09  Score=92.83  Aligned_cols=273  Identities=14%  Similarity=0.050  Sum_probs=137.3

Q ss_pred             HHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCH---HHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCC-CC----HHH
Q 012126          132 LFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLP---KQLNRILELLVTHRNYLRPAFDLFKSAHKHGVL-PN----TKS  203 (470)
Q Consensus       132 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~  203 (470)
                      ........+...|++++|++++++..+.....+.   ......+..++...|++++|...|++..+.... ++    ...
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   93 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   93 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHH
Confidence            3344455566777777777777776653211111   111222333444555666777766666532110 11    223


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHC----CCCC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC----CCCHh
Q 012126          204 YNIMMRAFCFNGDISIAYTLFNKMFER----GVMP---DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGF----VPDTL  272 (470)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~  272 (470)
                      +..+...+...|++..+...+.+....    +...   ....+..+...+...|+++.+...+........    .....
T Consensus        94 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  173 (366)
T d1hz4a_          94 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  173 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHH
Confidence            444555666666666666666654331    1111   112334455556666666666666666554221    11223


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCC----HHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCC---HHH
Q 012126          273 SYTTLLNSLCRKKKLREAYKLLCRMKVKG--CNPD----IVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPN---LVS  343 (470)
Q Consensus       273 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~  343 (470)
                      .+..+...+...++...+...+.+.....  ....    ...+..+...+...|++++|...+..........+   ...
T Consensus       174 ~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  253 (366)
T d1hz4a_         174 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  253 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHH
Confidence            34444455556666666666665543321  0111    12234444555666666666666666544322111   233


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          344 YRTLVGGLCDQGMFDVAKKYMQLMIS----KGFSPH-FSVSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       344 ~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      +..+..++...|++++|...++.+..    .+..|+ ..++..+..+|...|++++|.+.+++.++
T Consensus       254 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         254 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            44455566666666666666665543    122222 23445555666666666666666666555

>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=99.20  E-value=3e-08  Score=88.85  Aligned_cols=273  Identities=10%  Similarity=-0.041  Sum_probs=194.0

Q ss_pred             HHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCC-----HHHHHHHHHHHHHcCCchhHHHHHHHHHhC----CCccCHH
Q 012126           96 STYLILILKLGRAKYFSLIDDILITLKSEHYPVT-----PSLFTYLIKIYAESNLPDRALKTFRSMLEF----NCKPLPK  166 (470)
Q Consensus        96 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~p~~~  166 (470)
                      .........+...|++++|.++++...... |.+     ..++..+..+|...|++++|+..|++..+.    +..+...
T Consensus        13 e~~~lrA~~~~~~g~~~~A~~~~~~aL~~~-~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   91 (366)
T d1hz4a_          13 EFNALRAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYAL   91 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHH
Confidence            344445666788999999999999987764 322     245677888999999999999999987752    2222222


Q ss_pred             HHHHHHHHHHhcCCChhhHHHHHHHHHH----CCCCC---CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCC----CCCC
Q 012126          167 QLNRILELLVTHRNYLRPAFDLFKSAHK----HGVLP---NTKSYNIMMRAFCFNGDISIAYTLFNKMFERG----VMPD  235 (470)
Q Consensus       167 ~~~~ll~~~~~~~~~~~~a~~~~~~~~~----~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~p~  235 (470)
                      .....+.......+++..+...+.+...    .+...   ....+..+...+...|+++.+...+.......    ....
T Consensus        92 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  171 (366)
T d1hz4a_          92 WSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQ  171 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhH
Confidence            2333344455577789999999988764    22111   12355667788899999999999998887642    2223


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhC----CCCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC---CH
Q 012126          236 VESYRILMQGLCRKSQVNRAVDLLEDMLNK----GFVP--DTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNP---DI  306 (470)
Q Consensus       236 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~---~~  306 (470)
                      ..++......+...++...+...+.+....    +..+  ....+..+...+...|+.+.|...++.........   ..
T Consensus       172 ~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  251 (366)
T d1hz4a_         172 LQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQ  251 (366)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGH
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHH
Confidence            455666777888899999999988876542    1111  12345566777888999999999998876543222   23


Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHhchh----CCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 012126          307 VHYNTVVLGFCREGRAIDACKVLEDMPS----NGCLPN-LVSYRTLVGGLCDQGMFDVAKKYMQLMIS  369 (470)
Q Consensus       307 ~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  369 (470)
                      ..+..+...+...|++++|...++....    .+..|+ ...+..+...|...|++++|.+.+++.++
T Consensus       252 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         252 GQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4566678889999999999999998753    233333 45677788899999999999999998765

>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=99.18  E-value=7.4e-09  Score=91.28  Aligned_cols=189  Identities=11%  Similarity=0.056  Sum_probs=141.9

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 012126          215 GDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLL  294 (470)
Q Consensus       215 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  294 (470)
                      +..++|..+|++.++...+-+...|...+......|+.+.|..+|+.+.+........+|...+..+.+.|+.+.|.++|
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            34577888888887654444667777888888888999999999999887654434557888888888889999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHH-HHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC-C
Q 012126          295 CRMKVKGCNPDIVHYNTVVLG-FCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKG-F  372 (470)
Q Consensus       295 ~~m~~~~~~~~~~~~~~li~~-~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~  372 (470)
                      ++..+.+. .+...|...... +...|+.+.|..+|+.+.+. .+.+...|...+..+...|+++.|..+|++.++.. .
T Consensus       158 ~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            98887642 233334333332 34467889999999988875 33457788888888889999999999999988753 3


Q ss_pred             CCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          373 SPH--FSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       373 ~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      .|+  ...|...+..-...|+.+.+.++++++.+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            332  457888888778889999999999888653

>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=99.11  E-value=2.5e-10  Score=102.40  Aligned_cols=229  Identities=7%  Similarity=-0.060  Sum_probs=141.8

Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--ChhHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHHcCChHHHHHH
Q 012126          182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNG--DISIAYTLFNKMFERGVMPDVESYR-ILMQGLCRKSQVNRAVDL  258 (470)
Q Consensus       182 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~p~~~~~~-~ll~~~~~~~~~~~a~~~  258 (470)
                      +++|+.+++...+..+. +...|..+..++...+  ++++|...++++.+.... +...+. .....+...+.+++|+..
T Consensus        89 ~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~  166 (334)
T d1dcea1          89 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAF  166 (334)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHH
Confidence            56677777777765533 6666766666665554  367788888877776433 444443 344556667778888888


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCC
Q 012126          259 LEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCL  338 (470)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  338 (470)
                      ++.+.+.++. +...|+.+..++.+.|++++|...+....+.  .|+  . ..+...+...+..+++...+....... +
T Consensus       167 ~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~--~-~~~~~~~~~l~~~~~a~~~~~~~l~~~-~  239 (334)
T d1dcea1         167 TDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK--E-LELVQNAFFTDPNDQSAWFYHRWLLGR-A  239 (334)
T ss_dssp             HHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH--H-HHHHHHHHHHCSSCSHHHHHHHHHHSC-C
T ss_pred             HHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH--H-HHHHHHHHHhcchhHHHHHHHHHHHhC-c
Confidence            8777776654 6677777777777777777665555443332  111  1 122333455566667777776665543 2


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 012126          339 PNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPH-EDTWVMI  417 (470)
Q Consensus       339 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l  417 (470)
                      ++...+..+...+...|+.++|...+.+..+.. +.+...+..+..+|...|++++|.+.+++.++..  |+ ...|..|
T Consensus       240 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld--P~~~~y~~~L  316 (334)
T d1dcea1         240 EPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD--PMRAAYLDDL  316 (334)
T ss_dssp             CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC--GGGHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--cccHHHHHHH
Confidence            334445555666666777777777777776542 2234566667777788888888888888887743  53 3455555


Q ss_pred             HHHHH
Q 012126          418 VPQIC  422 (470)
Q Consensus       418 ~~~~~  422 (470)
                      ...+.
T Consensus       317 ~~~~~  321 (334)
T d1dcea1         317 RSKFL  321 (334)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            44443

>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=99.08  E-value=8.3e-10  Score=98.84  Aligned_cols=252  Identities=8%  Similarity=-0.062  Sum_probs=180.5

Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHH----------HHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC-
Q 012126          182 LRPAFDLFKSAHKHGVLPNTKSYNIMMRA----------FCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKS-  250 (470)
Q Consensus       182 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~----------~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-  250 (470)
                      .++|++++++.++..+. +...|+..-..          +...|.+++|+..++...+..++ +...|..+..++...+ 
T Consensus        45 ~~~al~~~~~~l~~~P~-~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~  122 (334)
T d1dcea1          45 DESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPE  122 (334)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSS
T ss_pred             cHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhcc
Confidence            45666666666654322 33344332222          33445678899999999887654 7777777777777665 


Q ss_pred             -ChHHHHHHHHHHHhCCCCCCHhhHH-HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHH
Q 012126          251 -QVNRAVDLLEDMLNKGFVPDTLSYT-TLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKV  328 (470)
Q Consensus       251 -~~~~a~~~~~~~~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  328 (470)
                       ++++|+..+.++...... +...+. .....+...+..++|+..++...+.. +-+...|+.+...+.+.|++++|...
T Consensus       123 ~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~  200 (334)
T d1dcea1         123 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (334)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHH
Confidence             478999999999887544 455544 44567778899999999999998874 34678899999999999999988776


Q ss_pred             HHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC
Q 012126          329 LEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEA  408 (470)
Q Consensus       329 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  408 (470)
                      +....+.  .|+.   ..+...+...+..+++...+....... +++...+..+...+...|+.++|...+.+..+... 
T Consensus       201 ~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-  273 (334)
T d1dcea1         201 GRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPENK-  273 (334)
T ss_dssp             CSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCH-
T ss_pred             HHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCc-
Confidence            6665542  1221   223344566777888888888887753 33444566677778888999999999999877542 


Q ss_pred             CCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCc
Q 012126          409 PHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDT  446 (470)
Q Consensus       409 p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  446 (470)
                      .+...|..+..++...|++++|.+.++++++  +.|+.
T Consensus       274 ~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~  309 (334)
T d1dcea1         274 WCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMR  309 (334)
T ss_dssp             HHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGG
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCccc
Confidence            2456788889999999999999999999986  45653

>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=99.04  E-value=4.5e-09  Score=90.11  Aligned_cols=149  Identities=9%  Similarity=-0.065  Sum_probs=84.7

Q ss_pred             hhhHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHH
Q 012126          182 LRPAFDLFKSAHKHGVLP---NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDL  258 (470)
Q Consensus       182 ~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  258 (470)
                      .+.++.-+++........   ...+|..+..+|.+.|++++|.+.|++.++..+. +..+|..+..+|.+.|++++|++.
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhh
Confidence            344555555655432111   2235556666677777777777777777665433 566676777777777777777777


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhch
Q 012126          259 LEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMP  333 (470)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  333 (470)
                      |+++.+.... +..++..+..+|...|++++|...|+...+.. +.+......+..++.+.+..+.+..+.....
T Consensus        94 ~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (259)
T d1xnfa_          94 FDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  166 (259)
T ss_dssp             HHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence            7777665433 44556666666667777777777777666552 1233333333333444444444444433333

>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=99.02  E-value=1.6e-08  Score=86.58  Aligned_cols=91  Identities=15%  Similarity=0.021  Sum_probs=46.7

Q ss_pred             HHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Q 012126          173 ELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQV  252 (470)
Q Consensus       173 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  252 (470)
                      +.++...|++++|...|++.++.... +..+|+.+..+|.+.|++++|++.|++..+.... +..++..+..++...|++
T Consensus        44 G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~  121 (259)
T d1xnfa_          44 GVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRD  121 (259)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHHHHHhhH
Confidence            33444445555555555555554322 4455555555555555555555555555554322 334444555555555555


Q ss_pred             HHHHHHHHHHHhC
Q 012126          253 NRAVDLLEDMLNK  265 (470)
Q Consensus       253 ~~a~~~~~~~~~~  265 (470)
                      ++|++.|+...+.
T Consensus       122 ~~A~~~~~~al~~  134 (259)
T d1xnfa_         122 KLAQDDLLAFYQD  134 (259)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            5555555555544

>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=98.72  E-value=4.6e-05  Score=64.53  Aligned_cols=227  Identities=8%  Similarity=-0.068  Sum_probs=147.1

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCCHhhHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCR----KSQVNRAVDLLEDMLNKGFVPDTLSYT  275 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  275 (470)
                      |+..+..|...+...+++++|++.|++..+.|   +...+..|...|..    ..+...|...+....+.+   +.....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            34556666667777788888888888887766   55666666666665    557777888877777665   333344


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHhHHHHHHHhchhCCCCCCHHHHHHH
Q 012126          276 TLLNSLCR----KKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCR----EGRAIDACKVLEDMPSNGCLPNLVSYRTL  347 (470)
Q Consensus       276 ~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  347 (470)
                      .+...+..    ..+.+.|...++...+.|.   ......+...+..    ......+...+......   .+...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhh
Confidence            44444432    4567778888887776652   2222333333332    34455666666665553   356666666


Q ss_pred             HHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          348 VGGLCD----QGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCN----VGKVDEACGVLEELLKAGEAPHEDTWVMIVP  419 (470)
Q Consensus       348 i~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  419 (470)
                      ...+..    ..+...+...++...+.|   +......+...|..    ..++++|...|++..+.|   ++..+..|..
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~  222 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  222 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             hhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHH
Confidence            666664    456667777777777754   44455555555544    568899999999988876   5667777777


Q ss_pred             HHHc----CCcHHHHHHHHHHHHHccccC
Q 012126          420 QICA----GEEMEKLGEVLNEIVKVEIKG  444 (470)
Q Consensus       420 ~~~~----~g~~~~a~~~~~~m~~~~~~p  444 (470)
                      .|.+    ..+.++|.+.|++..+.|..+
T Consensus       223 ~y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         223 MQYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            7765    447888999999988877554

>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=98.64  E-value=6.9e-07  Score=72.06  Aligned_cols=82  Identities=13%  Similarity=-0.053  Sum_probs=37.2

Q ss_pred             HhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHH
Q 012126          317 CREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEAC  396 (470)
Q Consensus       317 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  396 (470)
                      ...|+++.|++.|.++.    .|+..+|..+..+|...|++++|+..|++.++.+ +.+...|..+..+|.+.|++++|.
T Consensus        16 ~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          16 ADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHH
Confidence            34444444444444431    2334444444444444555555555554444432 223344444444444455555554


Q ss_pred             HHHHHHH
Q 012126          397 GVLEELL  403 (470)
Q Consensus       397 ~~~~~~~  403 (470)
                      +.|++.+
T Consensus        91 ~~~~kAl   97 (192)
T d1hh8a_          91 KDLKEAL   97 (192)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>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=98.58  E-value=4.4e-05  Score=64.70  Aligned_cols=60  Identities=13%  Similarity=-0.001  Sum_probs=28.3

Q ss_pred             HHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH----cCCchhHHHHHHHHHh
Q 012126           96 STYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAE----SNLPDRALKTFRSMLE  158 (470)
Q Consensus        96 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~  158 (470)
                      ..+..|...+.+.+++++|.+.|++..+.|   +...+..|...|..    ..+...|...+.....
T Consensus         3 ~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~   66 (265)
T d1ouva_           3 KELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACD   66 (265)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccc
Confidence            344444444445555555555555555444   33444444444443    3344445444444444

>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=98.58  E-value=1.1e-06  Score=76.16  Aligned_cols=166  Identities=8%  Similarity=-0.058  Sum_probs=75.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-CCCHHHHHHHHHHHH-hcCCHhHHHHHHHhchhC----CCCC-CH
Q 012126          273 SYTTLLNSLCRKKKLREAYKLLCRMKVK----GC-NPDIVHYNTVVLGFC-REGRAIDACKVLEDMPSN----GCLP-NL  341 (470)
Q Consensus       273 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~~~~~li~~~~-~~~~~~~a~~~~~~m~~~----~~~p-~~  341 (470)
                      +|..+..+|.+.|++++|...+++..+.    |. .....++..+...|. ..|++++|+..+++..+.    +..+ ..
T Consensus        79 ~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~  158 (290)
T d1qqea_          79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSN  158 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhh
Confidence            4444555555555555555555543321    10 001223333444442 246666666666554321    1111 12


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC------HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC-C---CH
Q 012126          342 VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPH------FSVSHALIKGFCNVGKVDEACGVLEELLKAGEA-P---HE  411 (470)
Q Consensus       342 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-p---~~  411 (470)
                      .++..+...+...|++++|...++++........      ...+...+..+...|+++.|.+.+++..+.... +   ..
T Consensus       159 ~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~  238 (290)
T d1qqea_         159 KCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRES  238 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------H
T ss_pred             hHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHH
Confidence            3355556666666666666666666655321111      012233334455566666666666666543211 0   12


Q ss_pred             HHHHHHHHHHHc--CCcHHHHHHHHHHHH
Q 012126          412 DTWVMIVPQICA--GEEMEKLGEVLNEIV  438 (470)
Q Consensus       412 ~~~~~l~~~~~~--~g~~~~a~~~~~~m~  438 (470)
                      .....++.++..  .+.+++|+..|+++.
T Consensus       239 ~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         239 NFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            233445555443  234566666555443

>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=98.56  E-value=3.2e-06  Score=68.00  Aligned_cols=120  Identities=12%  Similarity=-0.053  Sum_probs=59.7

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 012126          210 AFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLRE  289 (470)
Q Consensus       210 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  289 (470)
                      .+...|+++.|++.|.++    ..|+..+|..+..+|...|++++|++.|++.++.+.. +...|..+..+|.+.|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHHH
Confidence            344555555555555432    1234445555555555555555555555555554433 44455555555555555555


Q ss_pred             HHHHHHHHHHcCC--------------CCC-HHHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          290 AYKLLCRMKVKGC--------------NPD-IVHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       290 a~~~~~~m~~~~~--------------~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      |...|++.....-              ..+ ..++..+..++.+.|++++|.+.+....+
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~  148 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  148 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            5555555443200              000 12233444455555666666555555544

>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=98.52  E-value=2.5e-06  Score=73.84  Aligned_cols=206  Identities=10%  Similarity=0.033  Sum_probs=103.2

Q ss_pred             HHHHHHHHHccCCchHHHHHHHHHhhC----CC-CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHH
Q 012126           98 YLILILKLGRAKYFSLIDDILITLKSE----HY-PVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRIL  172 (470)
Q Consensus        98 ~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll  172 (470)
                      |......+...+++++|.+.|.+....    +- +.-..+|..+..+|.+.|++++|++.+++..+..            
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~------------  107 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIF------------  107 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH------------
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHh------------
Confidence            444455566667777777666665432    10 1112455666666667777777766666544310            


Q ss_pred             HHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hcCChhHHHHHHHHHHHC----CCCC-CHHHHHHHHHHH
Q 012126          173 ELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFC-FNGDISIAYTLFNKMFER----GVMP-DVESYRILMQGL  246 (470)
Q Consensus       173 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~  246 (470)
                          ...+....               ...++..+...|. ..|++++|.+.|++..+.    +..+ -..++..+...+
T Consensus       108 ----~~~~~~~~---------------~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~  168 (290)
T d1qqea_         108 ----THRGQFRR---------------GANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLK  168 (290)
T ss_dssp             ----HHTTCHHH---------------HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             ----hhcccchh---------------HHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHH
Confidence                00010000               1233344444443 346666666666655431    1111 123455566667


Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCCH------hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC---HHHHHHHHHHH
Q 012126          247 CRKSQVNRAVDLLEDMLNKGFVPDT------LSYTTLLNSLCRKKKLREAYKLLCRMKVKGCN-PD---IVHYNTVVLGF  316 (470)
Q Consensus       247 ~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~---~~~~~~li~~~  316 (470)
                      ...|++++|++.|+++.........      ..+...+..+...|+++.|...+++..+.... ++   ......++.++
T Consensus       169 ~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~  248 (290)
T d1qqea_         169 ALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAV  248 (290)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHH
T ss_pred             HHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHH
Confidence            7777777777777766654322111      11233344555667777777777766554210 11   12334455555


Q ss_pred             Hh--cCCHhHHHHHHHhchh
Q 012126          317 CR--EGRAIDACKVLEDMPS  334 (470)
Q Consensus       317 ~~--~~~~~~a~~~~~~m~~  334 (470)
                      -.  .+.+++|+..|+.+.+
T Consensus       249 ~~~d~e~~~eai~~y~~~~~  268 (290)
T d1qqea_         249 NEGDSEQLSEHCKEFDNFMR  268 (290)
T ss_dssp             HTTCTTTHHHHHHHHTTSSC
T ss_pred             HhcCHHHHHHHHHHHHHHhh
Confidence            43  2346677777766554

>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=98.48  E-value=1e-06  Score=71.66  Aligned_cols=99  Identities=10%  Similarity=-0.048  Sum_probs=69.6

Q ss_pred             CCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 012126          304 PDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALI  383 (470)
Q Consensus       304 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  383 (470)
                      |+...+......|.+.|++++|+..|.+..+.. +-+...|..+..+|.+.|++++|+..+++.++.. +-+...|..+.
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            555666666777777777777777777776653 2356667777777777777777777777777642 23456677777


Q ss_pred             HHHHccCCHHHHHHHHHHHHH
Q 012126          384 KGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      .+|...|++++|...|++.++
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            777777777777777777655

>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=98.43  E-value=6.2e-06  Score=60.18  Aligned_cols=91  Identities=11%  Similarity=-0.027  Sum_probs=49.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCH
Q 012126          208 MRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKL  287 (470)
Q Consensus       208 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  287 (470)
                      ...+...|++++|+..|++.++..+. +...|..+..+|...|++++|+..+....+.+.. +...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHccCH
Confidence            33445555555555555555554333 4555555555555555555555555555554433 445555555555555555


Q ss_pred             HHHHHHHHHHHHc
Q 012126          288 REAYKLLCRMKVK  300 (470)
Q Consensus       288 ~~a~~~~~~m~~~  300 (470)
                      ++|+..|++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            5555555555543

>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=98.39  E-value=9e-06  Score=63.09  Aligned_cols=91  Identities=12%  Similarity=-0.010  Sum_probs=56.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCH
Q 012126          208 MRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKL  287 (470)
Q Consensus       208 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  287 (470)
                      ...|.+.|++++|...|++.++.... +...|..+..+|...|++++|++.|+++++.... +..+|..+..++...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHcCCH
Confidence            44555666666666666666665433 5566666666666666666666666666655433 455666666666666666


Q ss_pred             HHHHHHHHHHHHc
Q 012126          288 REAYKLLCRMKVK  300 (470)
Q Consensus       288 ~~a~~~~~~m~~~  300 (470)
                      ++|...+++....
T Consensus        95 ~eA~~~~~~a~~~  107 (159)
T d1a17a_          95 RAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            6666666666554

>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=98.39  E-value=3.4e-06  Score=68.42  Aligned_cols=99  Identities=12%  Similarity=0.001  Sum_probs=66.1

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 012126          199 PNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLL  278 (470)
Q Consensus       199 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  278 (470)
                      |+...+......|.+.|++++|+..|++.++..+. +...|..+..+|.+.|++++|+..|++.++..+. +..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHHH
Confidence            45555666666777777777777777776666433 5666777777777777777777777777655433 455666677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 012126          279 NSLCRKKKLREAYKLLCRMKV  299 (470)
Q Consensus       279 ~~~~~~~~~~~a~~~~~~m~~  299 (470)
                      .+|.+.|++++|...|++..+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            777777777777777766554

>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=98.38  E-value=2.5e-06  Score=62.44  Aligned_cols=100  Identities=12%  Similarity=-0.030  Sum_probs=76.1

Q ss_pred             HHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC
Q 012126           66 QKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNL  145 (470)
Q Consensus        66 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  145 (470)
                      +..+...|++++|+..|+.+....  +.+...|..+..++...|++++|...+....+.+ |.++..|..+..++...|+
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC--CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccC
Confidence            455667888888888888887654  4567778888888888888888888888887775 6677888888888888888


Q ss_pred             chhHHHHHHHHHhCCCccCHHHHHH
Q 012126          146 PDRALKTFRSMLEFNCKPLPKQLNR  170 (470)
Q Consensus       146 ~~~A~~~~~~~~~~~~~p~~~~~~~  170 (470)
                      +++|+..|++..+  ..|+...+..
T Consensus        87 ~~~A~~~~~~a~~--~~p~~~~~~~  109 (117)
T d1elwa_          87 FEEAKRTYEEGLK--HEANNPQLKE  109 (117)
T ss_dssp             HHHHHHHHHHHHT--TCTTCHHHHH
T ss_pred             HHHHHHHHHHHHH--hCCCCHHHHH
Confidence            8888888888876  3455444433

>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=98.35  E-value=3.4e-06  Score=65.63  Aligned_cols=123  Identities=12%  Similarity=0.004  Sum_probs=93.2

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          308 HYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFC  387 (470)
Q Consensus       308 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  387 (470)
                      .+......|.+.|++++|+..|++..+.+ +-+...|..+..+|...|++++|...|+++++.. +-+...|..+..+|.
T Consensus        12 ~l~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~   89 (159)
T d1a17a_          12 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   89 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHH
Confidence            35556677889999999999999988864 3367788888899999999999999999998864 446678889999999


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH--HHcCCcHHHHHHH
Q 012126          388 NVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQ--ICAGEEMEKLGEV  433 (470)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~--~~~~g~~~~a~~~  433 (470)
                      ..|++++|...+++...... -+...+..+..+  ....+.++++...
T Consensus        90 ~~g~~~eA~~~~~~a~~~~p-~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          90 ALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999999988642 244555444433  2334445555544

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.30  E-value=0.00048  Score=59.62  Aligned_cols=176  Identities=9%  Similarity=0.023  Sum_probs=91.5

Q ss_pred             CCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHH
Q 012126           93 HSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRIL  172 (470)
Q Consensus        93 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll  172 (470)
                      ++..-...+...|.+.|.++.|..++..+.         -|..++..+.+.++++.|.+++.+.      -+..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHH
Confidence            344555666777778888888888887542         1566777777788888777776644      2455666666


Q ss_pred             HHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Q 012126          173 ELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQV  252 (470)
Q Consensus       173 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  252 (470)
                      ..+..... ...     .++.......+......++..|-..|.+++...+++..... -..+...++.++..|++.+ .
T Consensus        77 ~~l~~~~e-~~l-----a~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~  148 (336)
T d1b89a_          77 FACVDGKE-FRL-----AQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-P  148 (336)
T ss_dssp             HHHHHTTC-HHH-----HHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-H
T ss_pred             HHHHhCcH-HHH-----HHHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-h
Confidence            66654322 111     12223333345556667777777777777777777766543 2335666677777776653 3


Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 012126          253 NRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRM  297 (470)
Q Consensus       253 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m  297 (470)
                      ++..+.+...  .    +..-..-++..|-+.+-++++.-++.++
T Consensus       149 ~kl~e~l~~~--s----~~y~~~k~~~~c~~~~l~~elv~Ly~~~  187 (336)
T d1b89a_         149 QKMREHLELF--W----SRVNIPKVLRAAEQAHLWAELVFLYDKY  187 (336)
T ss_dssp             HHHHHHHHHH--S----TTSCHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHhc--c----ccCCHHHHHHHHHHcCChHHHHHHHHhc
Confidence            3333333222  1    1122334556666666666665555544

>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=98.29  E-value=1.1e-06  Score=64.62  Aligned_cols=99  Identities=16%  Similarity=0.102  Sum_probs=61.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC---HHHHHHHHHHHHHCCCCCC-HHHHHHHHHHH
Q 012126          346 TLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGK---VDEACGVLEELLKAGEAPH-EDTWVMIVPQI  421 (470)
Q Consensus       346 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~  421 (470)
                      .++..+...+++++|++.|++.+..+ +.+..++..+..++.+.++   +++|..+|+++++.+..|+ ..+|..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            45566666677777777777777653 4455666666666665443   3457777777665442222 23566666777


Q ss_pred             HcCCcHHHHHHHHHHHHHccccCCce
Q 012126          422 CAGEEMEKLGEVLNEIVKVEIKGDTR  447 (470)
Q Consensus       422 ~~~g~~~~a~~~~~~m~~~~~~p~~~  447 (470)
                      .+.|++++|.+.|+++++  +.|+..
T Consensus        83 ~~~g~~~~A~~~~~~aL~--~~P~~~  106 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ--TEPQNN  106 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH--HCTTCH
T ss_pred             HHHhhhHHHHHHHHHHHH--hCcCCH
Confidence            777777777777777774  345543

>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=98.23  E-value=7e-06  Score=59.36  Aligned_cols=88  Identities=14%  Similarity=0.002  Sum_probs=50.9

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCH
Q 012126          208 MRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKL  287 (470)
Q Consensus       208 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  287 (470)
                      ...+.+.|++++|...|++.++..+. +..+|..+..++.+.|++++|+..|++..+..+. +..++..+..+|...|++
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHCCCH
Confidence            44455566666666666666555433 4555666666666666666666666665555433 455555566666666666


Q ss_pred             HHHHHHHHHH
Q 012126          288 REAYKLLCRM  297 (470)
Q Consensus       288 ~~a~~~~~~m  297 (470)
                      ++|.+.+++.
T Consensus       101 ~~A~~~l~~~  110 (112)
T d1hxia_         101 NAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666665553

>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=98.21  E-value=3.9e-06  Score=60.79  Aligned_cols=94  Identities=14%  Similarity=0.075  Sum_probs=80.8

Q ss_pred             ChHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012126           61 SPCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIY  140 (470)
Q Consensus        61 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  140 (470)
                      .....+..+...|++..|+..|+.+....  +.+...|..+...+.+.+++++|+..+++..+.. |.+..++..+...|
T Consensus        18 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y   94 (112)
T d1hxia_          18 NPMEEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   94 (112)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHH
Confidence            44567788888999999999999987654  4578899999999999999999999999988876 67889999999999


Q ss_pred             HHcCCchhHHHHHHHHH
Q 012126          141 AESNLPDRALKTFRSML  157 (470)
Q Consensus       141 ~~~g~~~~A~~~~~~~~  157 (470)
                      ...|+.++|++.|++.+
T Consensus        95 ~~~g~~~~A~~~l~~~l  111 (112)
T d1hxia_          95 TNEHNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHh
Confidence            99999999999998753

>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=98.08  E-value=1.8e-05  Score=57.94  Aligned_cols=93  Identities=17%  Similarity=0.123  Sum_probs=40.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC---hHHHHHHHHHHHhCCCCCCH-hhHHHHHHHHH
Q 012126          207 MMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQ---VNRAVDLLEDMLNKGFVPDT-LSYTTLLNSLC  282 (470)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~  282 (470)
                      +++.+...+++++|.+.|++....+.. +..++..+..++.+.++   .++|+.+|+++...+..|+. .++..+..+|.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            344444444555555555554444322 44444444444443322   22344445444443322221 23344444444


Q ss_pred             hcCCHHHHHHHHHHHHHc
Q 012126          283 RKKKLREAYKLLCRMKVK  300 (470)
Q Consensus       283 ~~~~~~~a~~~~~~m~~~  300 (470)
                      +.|++++|.+.|+++.+.
T Consensus        84 ~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHHh
Confidence            555555555555554443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.05  E-value=0.003  Score=54.51  Aligned_cols=284  Identities=9%  Similarity=0.015  Sum_probs=143.7

Q ss_pred             hHHHHHHHhcCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 012126           62 PCRVQKLIASQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYA  141 (470)
Q Consensus        62 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  141 (470)
                      ...++..+...|.++.|..++..+.          -|..++..+.+.++++.|.+.+.+.      .+..+|..+...+.
T Consensus        17 ~~~i~~~c~~~~lye~A~~lY~~~~----------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~   80 (336)
T d1b89a_          17 IQQVGDRCYDEKMYDAAKLLYNNVS----------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACV   80 (336)
T ss_dssp             ------------CTTTHHHHHHHTT----------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhCC----------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHH
Confidence            3455667778888888888887552          2777778888888888887776643      25678888888887


Q ss_pred             HcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHH
Q 012126          142 ESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAY  221 (470)
Q Consensus       142 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  221 (470)
                      .......|     .+...+...+......++..+- ..|.+++...+++...... ..+...++.++..|++.+. ++..
T Consensus        81 ~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye-~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~~-~kl~  152 (336)
T d1b89a_          81 DGKEFRLA-----QMCGLHIVVHADELEELINYYQ-DRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP-QKMR  152 (336)
T ss_dssp             HTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHH-HTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH-HHHH
T ss_pred             hCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHH-HcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhCh-HHHH
Confidence            76655433     2222333345555555666554 4566888888888766432 3467778888888877643 3333


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 012126          222 TLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKG  301 (470)
Q Consensus       222 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~  301 (470)
                      +   .+...+   +..-...++..|...+-+.++.-++..+...    + .+...++   ....+........+-..+. 
T Consensus       153 e---~l~~~s---~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~----~-~A~~~~i---~~~~~~~~~~~f~e~~~k~-  217 (336)
T d1b89a_         153 E---HLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKYEEY----D-NAIITMM---NHPTDAWKEGQFKDIITKV-  217 (336)
T ss_dssp             H---HHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCH----H-HHHHHHH---HSTTTTCCHHHHHHHHHHC-
T ss_pred             H---HHHhcc---ccCCHHHHHHHHHHcCChHHHHHHHHhcCCH----H-HHHHHHH---HcchhhhhHHHHHHHHHcc-
Confidence            3   333221   1122334556666666666665555543211    0 0111111   1111111111111111221 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 012126          302 CNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHA  381 (470)
Q Consensus       302 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  381 (470)
                        .|+..|-..+..|... +.+-...++..+... +  |.   ..++..+.+.+++.....+++...+.|   +..+.++
T Consensus       218 --~N~e~~~~~i~~yL~~-~p~~i~~lL~~v~~~-~--d~---~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~a  285 (336)
T d1b89a_         218 --ANVELYYRAIQFYLEF-KPLLLNDLLMVLSPR-L--DH---TRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNES  285 (336)
T ss_dssp             --SSTHHHHHHHHHHHHH-CGGGHHHHHHHHGGG-C--CH---HHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHH
T ss_pred             --CChHHHHHHHHHHHHc-CHHHHHHHHHHhccC-C--CH---HHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHH
Confidence              1333344444444432 122233333333221 1  11   234445556666666666666655544   3467777


Q ss_pred             HHHHHHccCCHHHHH
Q 012126          382 LIKGFCNVGKVDEAC  396 (470)
Q Consensus       382 li~~~~~~g~~~~a~  396 (470)
                      +...|...++++.-.
T Consensus       286 l~~lyie~~d~~~l~  300 (336)
T d1b89a_         286 LNNLFITEEDYQALR  300 (336)
T ss_dssp             HHHHHHHTTCHHHHH
T ss_pred             HHHHHhCcchhHHHH
Confidence            888888887765433

>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=98.02  E-value=0.00011  Score=57.44  Aligned_cols=79  Identities=10%  Similarity=-0.074  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          343 SYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQIC  422 (470)
Q Consensus       343 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  422 (470)
                      +|+.+..+|.+.|++++|+..++..++.. +.+...+..+..+|...|++++|...|++.++.+.. +......+..+..
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~  141 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQ  141 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            56667778888999999999998888864 446778888888899999999999999998885421 4555555544443


Q ss_pred             c
Q 012126          423 A  423 (470)
Q Consensus       423 ~  423 (470)
                      +
T Consensus       142 ~  142 (170)
T d1p5qa1         142 R  142 (170)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.95  E-value=1.9e-06  Score=80.78  Aligned_cols=169  Identities=9%  Similarity=-0.033  Sum_probs=91.9

Q ss_pred             chhHHHHHHHHHhCCCccCHHHHHHHH-HHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHH
Q 012126          146 PDRALKTFRSMLEFNCKPLPKQLNRIL-ELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLF  224 (470)
Q Consensus       146 ~~~A~~~~~~~~~~~~~p~~~~~~~ll-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  224 (470)
                      +..+.+.++...+....++.......+ ..+....+.++.++..+....+..+ ++...+..+...+.+.|+.+.|...+
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~~-~~~~~~~~lg~~~~~~~~~~~A~~~~  143 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVDL-PCRVKSSQLGIISNKQTHTSAIVKPQ  143 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------C
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCh-hhHHHHHHhHHHHHhCCCHHHHHHHH
Confidence            445666676666543333332222222 2222222334455544444433322 35566777888888889998888877


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 012126          225 NKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNP  304 (470)
Q Consensus       225 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~  304 (470)
                      +......   ...++..+...+...|++++|+..|.+..+..+. +...|+.|...+...|+..+|...|.+..... +|
T Consensus       144 ~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~  218 (497)
T d1ya0a1         144 SSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FP  218 (497)
T ss_dssp             CHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BC
T ss_pred             HHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CC
Confidence            7665432   2356777888889999999999999999887554 66789999999999999999999999888764 56


Q ss_pred             CHHHHHHHHHHHHhcC
Q 012126          305 DIVHYNTVVLGFCREG  320 (470)
Q Consensus       305 ~~~~~~~li~~~~~~~  320 (470)
                      -..++..|...|.+..
T Consensus       219 ~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         219 FPAASTNLQKALSKAL  234 (497)
T ss_dssp             CHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhh
Confidence            6778888887776543

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.93  E-value=8.3e-05  Score=56.90  Aligned_cols=116  Identities=9%  Similarity=-0.038  Sum_probs=70.7

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHhchhCCC----CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 012126          307 VHYNTVVLGFCREGRAIDACKVLEDMPSNGC----LPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHAL  382 (470)
Q Consensus       307 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~----~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  382 (470)
                      ..+..-...+.+.|++.+|+..|.+..+.-.    .++....                    .....    ....+|+.+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~--------------------~~~~~----~~~~~~~Nl   73 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILL--------------------DKKKN----IEISCNLNL   73 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHH--------------------HHHHH----HHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHH--------------------Hhhhh----HHHHHHhhH
Confidence            3445555667777888888877777665310    0111100                    00000    012356667


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCceee
Q 012126          383 IKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTRIV  449 (470)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  449 (470)
                      ..+|.+.|++++|++.+++.++.+ +.+..+|..+..++...|++++|+..|++.++.  .|+....
T Consensus        74 a~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~n~~~  137 (153)
T d2fbna1          74 ATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDI  137 (153)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHH
T ss_pred             HHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHH
Confidence            777778888888888888777754 236677777788888888888888888887743  4554433

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.91  E-value=2.6e-05  Score=57.83  Aligned_cols=95  Identities=9%  Similarity=0.046  Sum_probs=50.9

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC--CCCC----HHHHHHH
Q 012126          309 YNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKG--FSPH----FSVSHAL  382 (470)
Q Consensus       309 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~~~----~~~~~~l  382 (470)
                      +..+...|.+.|++++|+..|.+..+.+ +.+...+..+..+|.+.|++++|+..++++++..  ....    ..+|..+
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            3344555666666666666666665542 2245555556666666666666666666655421  0000    1244445


Q ss_pred             HHHHHccCCHHHHHHHHHHHHH
Q 012126          383 IKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      ...+...+++++|.+.|++.+.
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHh
Confidence            5555555666666666655544

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.90  E-value=0.00014  Score=53.56  Aligned_cols=94  Identities=15%  Similarity=0.158  Sum_probs=53.2

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-CC-----HhhHHHHH
Q 012126          205 NIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFV-PD-----TLSYTTLL  278 (470)
Q Consensus       205 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~-----~~~~~~ll  278 (470)
                      ..+...+...|++++|+..|.+.++.+.. +...+..+..+|.+.|++++|++.++++++.... +.     ..+|..+.
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            34555566666666666666666665433 5566666666666666666666666665543211 00     12344455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 012126          279 NSLCRKKKLREAYKLLCRMKV  299 (470)
Q Consensus       279 ~~~~~~~~~~~a~~~~~~m~~  299 (470)
                      ..+...+++++|+..|+....
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            555555666666666655544

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.90  E-value=0.00021  Score=55.69  Aligned_cols=62  Identities=6%  Similarity=-0.171  Sum_probs=36.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhC
Q 012126          273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSN  335 (470)
Q Consensus       273 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  335 (470)
                      +|+.+..+|.+.|++++|+..++..++.. +.++..|..+..+|...|++++|+..|+...+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            34455555666666666666666665542 224555556666666666666666666666553

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.78  E-value=0.00067  Score=51.59  Aligned_cols=62  Identities=11%  Similarity=-0.005  Sum_probs=37.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhC
Q 012126          273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSN  335 (470)
Q Consensus       273 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  335 (470)
                      +|+.+..+|.+.|++++|++.++...+.. +.+..+|..+..++...|++++|+..|+...+.
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45555666666666666666666665542 334556666666666666666666666666553

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.76  E-value=8.3e-06  Score=76.29  Aligned_cols=228  Identities=9%  Similarity=-0.029  Sum_probs=116.5

Q ss_pred             HHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHH
Q 012126          113 LIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSA  192 (470)
Q Consensus       113 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~  192 (470)
                      +|.+.+++..+.. |.....+..+..+|...|++++|   |++++..  .|+..........+.. . .+..+.+.++..
T Consensus         4 eA~q~~~qA~~l~-p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~--dp~~a~~~~~e~~Lw~-~-~y~~~ie~~r~~   75 (497)
T d1ya0a1           4 QSAQYLRQAEVLK-ADMTDSKLGPAEVWTSRQALQDL---YQKMLVT--DLEYALDKKVEQDLWN-H-AFKNQITTLQGQ   75 (497)
T ss_dssp             HHHHHHHHHHHHH-GGGTCSSSCSSSSHHHHHHHHHH---HHHHHHH--CHHHHHHHTHHHHHHH-H-HTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC-CCCHHHHhhHHHHHHHHchHHHH---HHHHHHc--ChhhHHHHhHHHHHHH-H-HHHHHHHHHHHh
Confidence            3445555544321 12233344455556666666554   5555442  1221111111111111 1 144566666666


Q ss_pred             HHCCCCCCHHHHHHHH--HHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC
Q 012126          193 HKHGVLPNTKSYNIMM--RAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPD  270 (470)
Q Consensus       193 ~~~~~~~~~~~~~~li--~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  270 (470)
                      .+....++..-....+  ......+.++.++..+....+.. .++...+..+...+.+.|+.+.|...+.......   .
T Consensus        76 ~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~  151 (497)
T d1ya0a1          76 AKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---C  151 (497)
T ss_dssp             HSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHH---H
T ss_pred             cccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---H
Confidence            6544333322222211  22223445555555554443332 2255667778888889999999988877765432   2


Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHH
Q 012126          271 TLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGG  350 (470)
Q Consensus       271 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  350 (470)
                      ..++..+.+.+...|++++|...|++..+.. +-+...|+.+...+...|+..+|+..|.+..... .|...++..|...
T Consensus       152 ~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~  229 (497)
T d1ya0a1         152 QHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKA  229 (497)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHH
Confidence            3567778899999999999999999998873 3356899999999999999999999999988764 4677888888877


Q ss_pred             HHhc
Q 012126          351 LCDQ  354 (470)
Q Consensus       351 ~~~~  354 (470)
                      +.+.
T Consensus       230 ~~~~  233 (497)
T d1ya0a1         230 LSKA  233 (497)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            7643

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.72  E-value=0.00034  Score=54.41  Aligned_cols=79  Identities=13%  Similarity=-0.058  Sum_probs=56.1

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLN  279 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  279 (470)
                      +...|..+..++.+.|++++|+..+++.++.... +..+|..+..++...|++++|++.|+...+.... +..+...+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~-n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhh-hhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            3455666777788888888888888888776543 6777778888888888888888888888776433 4444444443


Q ss_pred             H
Q 012126          280 S  280 (470)
Q Consensus       280 ~  280 (470)
                      +
T Consensus       154 ~  154 (169)
T d1ihga1         154 V  154 (169)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.67  E-value=0.00054  Score=53.15  Aligned_cols=61  Identities=7%  Similarity=-0.110  Sum_probs=30.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchh
Q 012126          273 SYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPS  334 (470)
Q Consensus       273 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  334 (470)
                      .+..+..++.+.|++++|+..+.+.++.. +.+...|..+..+|...|++++|+..|+...+
T Consensus        79 ~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          79 CVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            34444445555555555555555554432 22344455555555555555555555555544

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.65  E-value=0.00064  Score=53.19  Aligned_cols=71  Identities=10%  Similarity=0.068  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH-----CCCCCCHHH
Q 012126          342 VSYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLK-----AGEAPHEDT  413 (470)
Q Consensus       342 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~p~~~~  413 (470)
                      ..+..+..++...|++++|...++.+++.. +-+...|..++.+|.+.|+.++|++.|+++.+     .|+.|...+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            345667777778888888888888887753 45677788888888888888888888877643     477777665

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.64  E-value=0.0013  Score=50.83  Aligned_cols=95  Identities=12%  Similarity=0.043  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 012126          343 SYRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQIC  422 (470)
Q Consensus       343 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  422 (470)
                      .|+.+..+|.+.|++++|+..++..++.. +.+...|..+..++...|++++|...|+++++... .+...+..+-....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P-~n~~~~~~l~~~~~  143 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQIFMCQK  143 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            45556777888899999999988888864 55677888888888899999999999998888542 24445554444444


Q ss_pred             cCCcH-HHHHHHHHHHHH
Q 012126          423 AGEEM-EKLGEVLNEIVK  439 (470)
Q Consensus       423 ~~g~~-~~a~~~~~~m~~  439 (470)
                      ..+.. +...+++..|.+
T Consensus       144 ~~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         144 KAKEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh
Confidence            43333 334455555543

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.64  E-value=0.0048  Score=47.43  Aligned_cols=128  Identities=6%  Similarity=-0.029  Sum_probs=80.3

Q ss_pred             HHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 012126          131 SLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRA  210 (470)
Q Consensus       131 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  210 (470)
                      ..+......+.+.|++++|+..|++.+..  .+             ...+...........+       ....|+.+..+
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~--~~-------------~~~~~~~~~~~~~~~~-------~~~~~~Nla~~   73 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSW--LE-------------MEYGLSEKESKASESF-------LLAAFLNLAMC   73 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HT-------------TCCSCCHHHHHHHHHH-------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--HH-------------Hhhccchhhhhhcchh-------HHHHHHhHHHH
Confidence            34555677788888888998888776541  00             0000000111111111       13356667777


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 012126          211 FCFNGDISIAYTLFNKMFERGVMPDVESYRILMQGLCRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLC  282 (470)
Q Consensus       211 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  282 (470)
                      |.+.|++++|+..+++.++.... +..+|..+..++...|++++|+..|.++++..+. +..+...+-.+..
T Consensus        74 ~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~  143 (168)
T d1kt1a1          74 YLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQIFMCQK  143 (168)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHH
T ss_pred             HHHhhhcccchhhhhhhhhcccc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            88888888888888888876543 7778888888888888888888888888876543 4444444444433

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.62  E-value=0.00084  Score=52.48  Aligned_cols=71  Identities=11%  Similarity=0.048  Sum_probs=43.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchh-----CCCCCCHHH
Q 012126          272 LSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPS-----NGCLPNLVS  343 (470)
Q Consensus       272 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~  343 (470)
                      ..+..+..++.+.|++++|+..++++.... +-+...|..++.+|.+.|+..+|++.|+++.+     .|+.|...+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            345556666666666666666666666552 33556666666666666666666666666532     466666544

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.49  E-value=7.5e-05  Score=62.78  Aligned_cols=123  Identities=14%  Similarity=0.004  Sum_probs=69.8

Q ss_pred             HHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccCHHHHHHHHHHHHhcCCChhh
Q 012126          105 LGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPLPKQLNRILELLVTHRNYLRP  184 (470)
Q Consensus       105 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~  184 (470)
                      ..+.|++++|...++..++.. |.+...+..+...++..|++++|++.|+...+.  .|+.......+..+....+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHH
Confidence            456678888888888887775 667788888888888888888888888887763  35444333333332211111111


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 012126          185 AFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMFER  230 (470)
Q Consensus       185 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  230 (470)
                      +..-.......+..++...+......+...|+.++|.++++++.+.
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            1110000000111112233334455566777788887777776654

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.48  E-value=0.00023  Score=59.74  Aligned_cols=121  Identities=11%  Similarity=0.030  Sum_probs=64.3

Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHhHH
Q 012126          247 CRKSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCRKKKLREAYKLLCRMKVKGCNPD-IVHYNTVVLGFCREGRAIDA  325 (470)
Q Consensus       247 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a  325 (470)
                      .+.|++++|+..+++.++..+. |...+..+...++..|++++|...++...+.  .|+ ...+..+...+...+..+++
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHHH
Confidence            3457777777777777776554 6667777777777777777777777777665  333 23333333333333333322


Q ss_pred             HHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 012126          326 CKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK  370 (470)
Q Consensus       326 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  370 (470)
                      ..-.......+-.++...+......+...|+.++|...+..+.+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            221111111111112233333344556667777777777666653

>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=97.41  E-value=0.00023  Score=53.68  Aligned_cols=99  Identities=9%  Similarity=-0.070  Sum_probs=65.0

Q ss_pred             cCCChHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHcc----------CCchHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 012126           71 SQSDPLLAKEIFDYASRQPNFRHSNSTYLILILKLGRA----------KYFSLIDDILITLKSEHYPVTPSLFTYLIKIY  140 (470)
Q Consensus        71 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  140 (470)
                      +.+.+++|++.|+.+....  |.+...+..+...+...          +.+++|...+++..+.. |.+..+|..+..+|
T Consensus         9 r~~~fe~A~~~~e~al~~~--P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y   85 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   85 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC--CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHH
Confidence            3455788999999887655  56777887777777643          44577888888887775 66778888888877


Q ss_pred             HHcCC-----------chhHHHHHHHHHhCCCccCHHHHHHHHHH
Q 012126          141 AESNL-----------PDRALKTFRSMLEFNCKPLPKQLNRILEL  174 (470)
Q Consensus       141 ~~~g~-----------~~~A~~~~~~~~~~~~~p~~~~~~~ll~~  174 (470)
                      ...|+           +++|.+.|++.++  +.|+...+...+..
T Consensus        86 ~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~  128 (145)
T d1zu2a1          86 TSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEM  128 (145)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             HHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHH
Confidence            66543           3455555555554  34554444444433

>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=97.41  E-value=0.00049  Score=51.79  Aligned_cols=67  Identities=9%  Similarity=-0.033  Sum_probs=29.4

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc----------CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 012126          215 GDISIAYTLFNKMFERGVMPDVESYRILMQGLCRK----------SQVNRAVDLLEDMLNKGFVPDTLSYTTLLNSLCR  283 (470)
Q Consensus       215 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  283 (470)
                      +.+++|...|+...+..+. +..++..+..++...          +.+++|+..|++.++..+. +..+|..+..+|..
T Consensus        11 ~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y~~   87 (145)
T d1zu2a1          11 LLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYTS   87 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHHHHH
Confidence            3344444444444444322 344444444444322          2234455555555544333 44444444444443

>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=97.20  E-value=0.0037  Score=47.41  Aligned_cols=91  Identities=11%  Similarity=0.034  Sum_probs=55.0

Q ss_pred             HHHhcCChHHHHHHHHHHHHCCC-CC----------CHHHHHHHHHHHHccCCHHHHHHHHHHHHHC-----CCCCC---
Q 012126          350 GLCDQGMFDVAKKYMQLMISKGF-SP----------HFSVSHALIKGFCNVGKVDEACGVLEELLKA-----GEAPH---  410 (470)
Q Consensus       350 ~~~~~g~~~~a~~~~~~~~~~~~-~~----------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~p~---  410 (470)
                      .+...|++++|+..|++.++..- .|          ...+|+.+..+|.+.|++++|.+.+++.++.     ...++   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            34455666666666666654210 01          1345666777777777777777777766532     11111   


Q ss_pred             --HHHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 012126          411 --EDTWVMIVPQICAGEEMEKLGEVLNEIVKV  440 (470)
Q Consensus       411 --~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  440 (470)
                        ...|..+..+|...|++++|++.|++.++.
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence              124566677788888888888888887754

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.95  E-value=0.009  Score=45.15  Aligned_cols=54  Identities=17%  Similarity=0.126  Sum_probs=24.9

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCC-C----------CHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 012126          210 AFCFNGDISIAYTLFNKMFERGVM-P----------DVESYRILMQGLCRKSQVNRAVDLLEDML  263 (470)
Q Consensus       210 ~~~~~g~~~~a~~~~~~m~~~~~~-p----------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  263 (470)
                      .+...|++++|++.|++.++.... |          ...+|+.+..+|...|++++|.+.+++.+
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            344455666666666555442110 1          12334444455555555555554444443

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.80  E-value=0.0064  Score=41.48  Aligned_cols=68  Identities=9%  Similarity=0.053  Sum_probs=42.0

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHCC-----CCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC
Q 012126          200 NTKSYNIMMRAFCFNGDISIAYTLFNKMFERG-----VMP-DVESYRILMQGLCRKSQVNRAVDLLEDMLNKGF  267 (470)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  267 (470)
                      +...+..+...+.+.|++++|...|++..+..     ..+ ...++..+..++.+.|++++|+..++++++..+
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P   77 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCc
Confidence            34445566667777777777777777665431     111 145566677777777777777777777766543

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.69  E-value=0.0029  Score=43.31  Aligned_cols=62  Identities=16%  Similarity=0.088  Sum_probs=36.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCC-----CCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 012126          344 YRTLVGGLCDQGMFDVAKKYMQLMISKG-----FSPH-FSVSHALIKGFCNVGKVDEACGVLEELLKA  405 (470)
Q Consensus       344 ~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  405 (470)
                      +..+...+.+.|++++|...|++.++..     ..++ ..+++.+..+|.+.|++++|.+.++++++.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3345566666677777777766665420     1111 345666666666666666666666666664

>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=96.41  E-value=0.054  Score=39.25  Aligned_cols=81  Identities=7%  Similarity=-0.034  Sum_probs=42.0

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCc
Q 012126          355 GMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCN----VGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICA----GEE  426 (470)
Q Consensus       355 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~  426 (470)
                      .+.++|.+++++..+.|   +......|...|..    ..+.++|.++|++..+.|   ++.....|...|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            34555555555555544   23333333333332    335666666666666654   34444445444443    345


Q ss_pred             HHHHHHHHHHHHHcc
Q 012126          427 MEKLGEVLNEIVKVE  441 (470)
Q Consensus       427 ~~~a~~~~~~m~~~~  441 (470)
                      .++|.+++++..+.|
T Consensus       111 ~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         111 EKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCC
Confidence            666666666666554

>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=96.40  E-value=0.048  Score=39.54  Aligned_cols=12  Identities=17%  Similarity=0.340  Sum_probs=4.7

Q ss_pred             hhHHHHHHHHHH
Q 012126          183 RPAFDLFKSAHK  194 (470)
Q Consensus       183 ~~a~~~~~~~~~  194 (470)
                      ++|..+|++..+
T Consensus        10 ~~A~~~~~kaa~   21 (133)
T d1klxa_          10 KKAIQYYVKACE   21 (133)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            334444444333

>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=96.17  E-value=0.11  Score=36.29  Aligned_cols=63  Identities=22%  Similarity=0.200  Sum_probs=30.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC
Q 012126          344 YRTLVGGLCDQGMFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGE  407 (470)
Q Consensus       344 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  407 (470)
                      +...++...++|.-++..++++.+.+.+ ++++...-.+..+|.+.|...++-+++.+.-+.|+
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            3334444455555555555555544432 44444445555555555555555555555544443

>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=94.71  E-value=0.41  Score=33.39  Aligned_cols=65  Identities=14%  Similarity=0.024  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 012126          307 VHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISKGF  372 (470)
Q Consensus       307 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  372 (470)
                      ...+..+..+.++|+-+...++++++.+. -+++......+..+|.+.|...++..++.+.-+.|+
T Consensus        87 e~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          87 EHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            34455566666677777777777765553 356666666677777777777777777777766664

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=94.62  E-value=1.4  Score=39.09  Aligned_cols=323  Identities=10%  Similarity=0.017  Sum_probs=174.7

Q ss_pred             hhcCCCCCCCHHHHHHHHHHHHccCCchHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHhCCCccC
Q 012126           85 ASRQPNFRHSNSTYLILILKLGRAKYFSLIDDILITLKSEHYPVTPSLFTYLIKIYAESNLPDRALKTFRSMLEFNCKPL  164 (470)
Q Consensus        85 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~p~  164 (470)
                      +.+.++.+.....-..-+..+++.++++.....+     ...|.+...-.....+....|+.++|...+..+-..|.. .
T Consensus        62 l~~~p~~P~~~~lr~~~l~~L~~~~~w~~~~~~~-----~~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~-~  135 (450)
T d1qsaa1          62 VRANPTLPPARTLQSRFVNELARREDWRGLLAFS-----PEKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-Q  135 (450)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHC-----CSCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-C
T ss_pred             HHHCCCChhHHHHHHHHHHHHHhccCHHHHHHhc-----cCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-C
Confidence            3344443333333444566777777776644433     123556665556777777888888888777765543311 1


Q ss_pred             HHHHHHHHHHHHhcCCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHH--------------HC
Q 012126          165 PKQLNRILELLVTHRNYLRPAFDLFKSAHKHGVLPNTKSYNIMMRAFCFNGDISIAYTLFNKMF--------------ER  230 (470)
Q Consensus       165 ~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~--------------~~  230 (470)
                      +..+..++..+                 .+.|. .+...+-.-+......|++..|..+...+.              ..
T Consensus       136 p~~c~~l~~~~-----------------~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~  197 (450)
T d1qsaa1         136 PNACDKLFSVW-----------------RASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN  197 (450)
T ss_dssp             CTHHHHHHHHH-----------------HHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC
T ss_pred             chHHHHHHHHH-----------------HhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhC
Confidence            12222233322                 22221 122222122222222233332222221110              00


Q ss_pred             ---------CCCCCHHHHHHHHHHHHH--cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH----HHhcCCHHHHHHHHH
Q 012126          231 ---------GVMPDVESYRILMQGLCR--KSQVNRAVDLLEDMLNKGFVPDTLSYTTLLNS----LCRKKKLREAYKLLC  295 (470)
Q Consensus       231 ---------~~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~----~~~~~~~~~a~~~~~  295 (470)
                               ....+......+..++.+  ..+.+.+..++......... +...+..+-..    ....+..+.+...+.
T Consensus       198 p~~~~~~~~~~~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~  276 (450)
T d1qsaa1         198 PNTVLTFARTTGATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRD  276 (450)
T ss_dssp             GGGHHHHHHHSCCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHH
T ss_pred             hHhHHHHHhcCCCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHH
Confidence                     011233333333333333  35677888888776654322 22222222222    223466677777777


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhchhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----
Q 012126          296 RMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMPSNGCLPNLVSYRTLVGGLCDQGMFDVAKKYMQLMISK-----  370 (470)
Q Consensus       296 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----  370 (470)
                      .....+.  +.....-.+......+++..+...+..|..... -...-..=+..++...|+.+.|...|..+...     
T Consensus       277 ~~~~~~~--~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~~-~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~~~fYG  353 (450)
T d1qsaa1         277 DAIMRSQ--STSLIERRVRMALGTGDRRGLNTWLARLPMEAK-EKDEWRYWQADLLLERGREAEAKEILHQLMQQRGFYP  353 (450)
T ss_dssp             HHHHTCC--CHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGG-GSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSHHH
T ss_pred             hhccccc--chHHHHHHHHHHHHcCChHHHHHHHHhcCcccc-cHHHHHHHHHHHHHHcCChhhHHHHHHHHhcCCChHH
Confidence            7766532  344444455556677899999999988865321 22333344667888899999999988876432     


Q ss_pred             -------CCCCC------------HHH---HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCcHH
Q 012126          371 -------GFSPH------------FSV---SHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVPQICAGEEME  428 (470)
Q Consensus       371 -------~~~~~------------~~~---~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  428 (470)
                             |.+++            ...   -...+..+...|+...|...|..+.+.   .+......+.....+.|.++
T Consensus       354 ~LAa~~Lg~~~~~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~lA~~~g~~~  430 (450)
T d1qsaa1         354 MVAAQRIGEEYELKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQLARYAFNNQWWD  430 (450)
T ss_dssp             HHHHHHTTCCCCCCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCCCCCCCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHHHHHHCCChh
Confidence                   22110            000   112345567889999999999888754   35667778888888999999


Q ss_pred             HHHHHHHHHH
Q 012126          429 KLGEVLNEIV  438 (470)
Q Consensus       429 ~a~~~~~~m~  438 (470)
                      .|+.......
T Consensus       431 ~aI~a~~~~~  440 (450)
T d1qsaa1         431 LSVQATIAGK  440 (450)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHH
Confidence            9998877663

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.08  E-value=0.23  Score=34.90  Aligned_cols=27  Identities=19%  Similarity=0.212  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHH
Q 012126          378 VSHALIKGFCNVGKVDEACGVLEELLK  404 (470)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~~~~  404 (470)
                      .+..|.-+|.+.|++++|.+.++.+++
T Consensus        75 ~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          75 CLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            333344444444555555555544444

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=91.24  E-value=1.1  Score=29.56  Aligned_cols=46  Identities=15%  Similarity=0.054  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHhch
Q 012126          288 REAYKLLCRMKVKGCNPDIVHYNTVVLGFCREGRAIDACKVLEDMP  333 (470)
Q Consensus       288 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  333 (470)
                      -++.+-+..+......|++....+.+++|.+.+++..|.++++..+
T Consensus        23 we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          23 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444444444444433

>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=91.04  E-value=1.4  Score=30.74  Aligned_cols=71  Identities=7%  Similarity=0.098  Sum_probs=38.4

Q ss_pred             CCHHHHHHHHHHHHccC---CHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCcHHHHHHHHHHHHHccccCCce
Q 012126          374 PHFSVSHALIKGFCNVG---KVDEACGVLEELLKAGEAPH-EDTWVMIVPQICAGEEMEKLGEVLNEIVKVEIKGDTR  447 (470)
Q Consensus       374 ~~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  447 (470)
                      +...+--.+..++++..   ++++++.+|++..+.+. .+ ...+..|.-+|.+.|++++|.+.++.+++  +.|+..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p-~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n~  107 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAE-SRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNK  107 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCc-hhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCcH
Confidence            33444444444444433   34566666666665431 12 24555566666777777777777777763  345543

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=89.04  E-value=2  Score=28.20  Aligned_cols=63  Identities=14%  Similarity=0.245  Sum_probs=39.7

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 012126          356 MFDVAKKYMQLMISKGFSPHFSVSHALIKGFCNVGKVDEACGVLEELLKAGEAPHEDTWVMIVP  419 (470)
Q Consensus       356 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  419 (470)
                      +.-++.+-++.+....+.|++.+..+-+.+|-+.+++.-|.++|+....+ +.++...|..+++
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            34455566666666667777777777777777777777777777766543 2233445555543