Citrus Sinensis ID: 036731

---

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-------26
Protein Sequence
MANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNRQK
Secondary Structure (PSIPRED)
cccccccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mangnrefgvvckpntvtYNTIIDGLCKEGFVDKAKELFLQMkdeninpnvvtynSLIHgfcyandgneaEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIqggvrpdafcEINIVAYGCLIDGLCKIGKLKNARELSQSLtraglmpnvvTYNITIHALCNDEQMDKAHDLFLDMevkgvapncvifttlmpsfirkNETSKVIELLRSMdkrnvmpyASILSIIVDLLVKNEislnsipqfnrqk
Flexible Loop (DISEMBL)
mangnrefgvvckpntvtYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSltraglmpnVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIfttlmpsfirkneTSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEislnsipqfnrqk
Low Complexity Region (SEG)
MANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNRQK
Disordered region (IsUnstruct)
*******FGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLN*********
Disordered Region (DISOPRED)
MANG***FGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNRQK
Disordered Region (DISEMBL)
MANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNRQK
Disordered Region (DISPRO)
MANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNRQK
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNRQK
Positional Conservation
no confident homologs detected

---

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	259	2.2.26 [Sep-21-2011]
Q0WVK7	741	Pentatricopeptide repeat-	yes	no	0.814	0.284	0.391	7e-41
Q76C99	791	Protein Rf1, mitochondria	N/A	no	0.915	0.299	0.353	1e-39
Q9LQ14	629	Pentatricopeptide repeat-	no	no	0.814	0.335	0.373	2e-38
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.857	0.294	0.346	1e-36
Q9SH26	577	Pentatricopeptide repeat-	no	no	0.814	0.365	0.364	2e-36
Q9LUR2	507	Putative pentatricopeptid	no	no	0.891	0.455	0.354	2e-36
Q9T0D6	566	Pentatricopeptide repeat-	no	no	0.907	0.415	0.333	4e-36
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.868	0.357	0.333	7e-36
Q9LQ16	632	Pentatricopeptide repeat-	no	no	0.849	0.348	0.340	9e-36
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.876	0.352	0.347	4e-35

>sp|Q0WVK7|PPR12_ARATH Pentatricopeptide repeat-containing protein At1g05670, mitochondrial OS=Arabidopsis thaliana GN=At1g05670 PE=2 SV=1

 Score =  167 bits (423), Expect = 7e-41,   Method: Compositional matrix adjust.
 Identities = 85/217 (39%), Positives = 124/217 (57%), Gaps = 6/217 (2%)

Query: 14  PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYL 73
           P+TV Y T+IDG CK G +  A + F +M   +I P+V+TY ++I GFC   D  EA  L
Sbjct: 349 PDTVVYTTLIDGFCKRGDIRAASKFFYEMHSRDITPDVLTYTAIISGFCQIGDMVEAGKL 408

Query: 74  FIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCL 133
           F EM  +GL+ D VTF  +++  CK   M +A R+ + MIQ G  P      N+V Y  L
Sbjct: 409 FHEMFCKGLEPDSVTFTELINGYCKAGHMKDAFRVHNHMIQAGCSP------NVVTYTTL 462

Query: 134 IDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGV 193
           IDGLCK G L +A EL   + + GL PN+ TYN  ++ LC    +++A  L  + E  G+
Sbjct: 463 IDGLCKEGDLDSANELLHEMWKIGLQPNIFTYNSIVNGLCKSGNIEEAVKLVGEFEAAGL 522

Query: 194 APNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP 230
             + V +TTLM ++ +  E  K  E+L+ M  + + P
Sbjct: 523 NADTVTYTTLMDAYCKSGEMDKAQEILKEMLGKGLQP 559

Arabidopsis thaliana (taxid: 3702)

>sp|Q76C99|RF1_ORYSI Protein Rf1, mitochondrial OS=Oryza sativa subsp. indica GN=Rf1 PE=2 SV=1

 Score =  163 bits (413), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 86/243 (35%), Positives = 134/243 (55%), Gaps = 6/243 (2%)

Query: 14  PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYL 73
           PN VTY  +I  LCK G V+ A   F QM DE ++P  + YNSLIHG C  N    AE L
Sbjct: 404 PNAVTYGAVIGILCKSGRVEDAMLYFEQMIDEGLSPGNIVYNSLIHGLCTCNKWERAEEL 463

Query: 74  FIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCL 133
            +EM+DRG+  + + FN I+D  CK  ++ E+ +L +LM++ GV+P      N++ Y  L
Sbjct: 464 ILEMLDRGICLNTIFFNSIIDSHCKEGRVIESEKLFELMVRIGVKP------NVITYNTL 517

Query: 134 IDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGV 193
           I+G C  GK+  A +L   +   GL PN VTY+  I+  C   +M+ A  LF +ME  GV
Sbjct: 518 INGYCLAGKMDEAMKLLSGMVSVGLKPNTVTYSTLINGYCKISRMEDALVLFKEMESSGV 577

Query: 194 APNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIP 253
           +P+ + +  ++    +   T+   EL   + +       S  +II+  L KN+++ +++ 
Sbjct: 578 SPDIITYNIILQGLFQTRRTAAAKELYVRITESGTQIELSTYNIILHGLCKNKLTDDALQ 637

Query: 254 QFN 256
            F 
Sbjct: 638 MFQ 640

Reduces the expression of the cytoplasmic male sterility (CMS)-associated mitochondrial gene ORF79, encoding a cytotoxic peptide. Can restore male fertility by blocking ORF79 production via endonucleolytic cleavage of dicistronic ATP6/ORF79 mRNA. Promotes the editing of ATP6 mRNAs independently of its cleavage function.

Oryza sativa subsp. indica (taxid: 39946)

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

 Score =  159 bits (401), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 81/217 (37%), Positives = 123/217 (56%), Gaps = 6/217 (2%)

Query: 14  PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYL 73
           P+  TY+++I+G C    +D+AK +F  M  ++  PNVVTYN+LI GFC A    E   L
Sbjct: 358 PDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEEGMEL 417

Query: 74  FIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCL 133
           F EM  RGL  + VT+N ++  L +    D A ++   M+  GV PD      I+ Y  L
Sbjct: 418 FREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPD------IITYSIL 471

Query: 134 IDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGV 193
           +DGLCK GKL+ A  + + L ++ + P++ TYNI I  +C   +++   DLF  + +KGV
Sbjct: 472 LDGLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGV 531

Query: 194 APNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP 230
            PN +I+TT++  F RK    +   L R M +   +P
Sbjct: 532 KPNVIIYTTMISGFCRKGLKEEADALFREMKEDGTLP 568

Arabidopsis thaliana (taxid: 3702)

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

 Score =  153 bits (387), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 79/228 (34%), Positives = 131/228 (57%), Gaps = 6/228 (2%)

Query: 12  CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAE 71
           C+P+  TYN +ID LC +G +D+A  +  QM+      +V+TYN+LI GFC AN   EAE
Sbjct: 431 CEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCARSVITYNTLIDGFCKANKTREAE 490

Query: 72  YLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYG 131
            +F EM   G+  + VT+N ++D LCK+R++++A +L+D MI  G +PD +       Y 
Sbjct: 491 EIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEGQKPDKY------TYN 544

Query: 132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK 191
            L+   C+ G +K A ++ Q++T  G  P++VTY   I  LC   +++ A  L   +++K
Sbjct: 545 SLLTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTLISGLCKAGRVEVASKLLRSIQMK 604

Query: 192 GVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIV 239
           G+      +  ++    RK +T++ I L R M ++N  P  ++   IV
Sbjct: 605 GINLTPHAYNPVIQGLFRKRKTTEAINLFREMLEQNEAPPDAVSYRIV 652

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  152 bits (385), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 79/217 (36%), Positives = 121/217 (55%), Gaps = 6/217 (2%)

Query: 14  PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYL 73
           P+  TY+++I+G C    +D+AK +F  M  ++  PNVVTYN+LI+GFC A   +E   L
Sbjct: 363 PDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLINGFCKAKRIDEGVEL 422

Query: 74  FIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCL 133
           F EM  RGL  + VT+  ++    + R  D A  +   M+  GV P      NI+ Y  L
Sbjct: 423 FREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGVHP------NIMTYNTL 476

Query: 134 IDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGV 193
           +DGLCK GKL+ A  + + L R+ + P + TYNI I  +C   +++   DLF  + +KGV
Sbjct: 477 LDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGV 536

Query: 194 APNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP 230
            P+ +I+ T++  F RK    +   L R M +   +P
Sbjct: 537 KPDVIIYNTMISGFCRKGLKEEADALFRKMREDGPLP 573

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LUR2|PP238_ARATH Putative pentatricopeptide repeat-containing protein At3g16710, mitochondrial OS=Arabidopsis thaliana GN=At3g16710 PE=3 SV=1

 Score =  152 bits (385), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 84/237 (35%), Positives = 121/237 (51%), Gaps = 6/237 (2%)

Query: 9   GVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGN 68
           G+  KPN VTY T+I  LCK   ++ A ELF QM      PNVVTYN+L+ G C      
Sbjct: 181 GMGFKPNVVTYTTLIRCLCKNRHLNHAVELFNQMGTNGSRPNVVTYNALVTGLCEIGRWG 240

Query: 69  EAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIV 128
           +A +L  +MM R ++ +V+TF  ++D   K  K+ EA  L ++MIQ  V PD F      
Sbjct: 241 DAAWLLRDMMKRRIEPNVITFTALIDAFVKVGKLMEAKELYNVMIQMSVYPDVF------ 294

Query: 129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDM 188
            YG LI+GLC  G L  AR++   + R G  PN V Y   IH  C  ++++    +F +M
Sbjct: 295 TYGSLINGLCMYGLLDEARQMFYLMERNGCYPNEVIYTTLIHGFCKSKRVEDGMKIFYEM 354

Query: 189 EVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN 245
             KGV  N + +T L+  +          E+   M  R   P     ++++D L  N
Sbjct: 355 SQKGVVANTITYTVLIQGYCLVGRPDVAQEVFNQMSSRRAPPDIRTYNVLLDGLCCN 411

Arabidopsis thaliana (taxid: 3702)

>sp|Q9T0D6|PP306_ARATH Pentatricopeptide repeat-containing protein At4g11690 OS=Arabidopsis thaliana GN=At4g11690 PE=2 SV=1

 Score =  151 bits (382), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 81/243 (33%), Positives = 138/243 (56%), Gaps = 8/243 (3%)

Query: 6   REFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN 65
           RE GV C  N VTYNT+I GLC+E  +++A ++  QMK + INPN++TYN+LI GFC   
Sbjct: 295 RERGVSC--NIVTYNTLIGGLCREMKLNEANKVVDQMKSDGINPNLITYNTLIDGFCGVG 352

Query: 66  DGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEI 125
              +A  L  ++  RGL   +VT+N+++   C+      A +++  M + G++P      
Sbjct: 353 KLGKALSLCRDLKSRGLSPSLVTYNILVSGFCRKGDTSGAAKMVKEMEERGIKPSK---- 408

Query: 126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLF 185
             V Y  LID   +   ++ A +L  S+   GL+P+V TY++ IH  C   QM++A  LF
Sbjct: 409 --VTYTILIDTFARSDNMEKAIQLRLSMEELGLVPDVHTYSVLIHGFCIKGQMNEASRLF 466

Query: 186 LDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN 245
             M  K   PN VI+ T++  + ++  + + ++LL+ M+++ + P  +    ++++L K 
Sbjct: 467 KSMVEKNCEPNEVIYNTMILGYCKEGSSYRALKLLKEMEEKELAPNVASYRYMIEVLCKE 526

Query: 246 EIS 248
             S
Sbjct: 527 RKS 529

Arabidopsis thaliana (taxid: 3702)

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

 Score =  150 bits (380), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 77/231 (33%), Positives = 132/231 (57%), Gaps = 6/231 (2%)

Query: 12  CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAE 71
           C PN VTYNT+I G CK   VD+  ELF +M    +  N VTY +LIHGF  A + + A+
Sbjct: 392 CFPNVVTYNTLIKGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQ 451

Query: 72  YLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYG 131
            +F +M+  G+  D++T+++++D LC N K++ A  + + + +  + PD      I  Y 
Sbjct: 452 IVFKQMVSDGVLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPD------IYTYN 505

Query: 132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK 191
            +I+G+CK GK+++  +L  SL+  G+ PNVVTY   +   C     ++A  LF +M+ +
Sbjct: 506 IMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVVTYTTMMSGFCRKGLKEEADALFREMKEE 565

Query: 192 GVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLL 242
           G  P+   + TL+ + +R  + +   EL+R M     +  AS + ++ ++L
Sbjct: 566 GPLPDSGTYNTLIRAHLRDGDKAASAELIREMRSCRFVGDASTIGLVTNML 616

Arabidopsis thaliana (taxid: 3702)

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

 Score =  150 bits (379), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 77/226 (34%), Positives = 125/226 (55%), Gaps = 6/226 (2%)

Query: 14  PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYL 73
           P+  TY+++I+G C    +D+AK +F  M  ++  PNVVTY++LI GFC A    E   L
Sbjct: 361 PDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYSTLIKGFCKAKRVEEGMEL 420

Query: 74  FIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCL 133
           F EM  RGL  + VT+  ++    + R  D A  +   M+  GV P      NI+ Y  L
Sbjct: 421 FREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVHP------NILTYNIL 474

Query: 134 IDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGV 193
           +DGLCK GKL  A  + + L R+ + P++ TYNI I  +C   +++   +LF ++ +KGV
Sbjct: 475 LDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCKAGKVEDGWELFCNLSLKGV 534

Query: 194 APNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIV 239
           +PN + + T++  F RK    +   LL+ M +   +P +   + ++
Sbjct: 535 SPNVIAYNTMISGFCRKGSKEEADSLLKKMKEDGPLPNSGTYNTLI 580

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LPX2|PPR39_ARATH Pentatricopeptide repeat-containing protein At1g12775, mitochondrial OS=Arabidopsis thaliana GN=At1g12775 PE=2 SV=1

 Score =  148 bits (373), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 81/233 (34%), Positives = 130/233 (55%), Gaps = 6/233 (2%)

Query: 13  KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEY 72
           K + V Y+ IIDGLCK+G +D A  LF +M+ +    +++TYN+LI GFC A   ++   
Sbjct: 260 KLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAK 319

Query: 73  LFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC 132
           L  +M+ R +  +VVTF+V++D   K  K+ EA +LL  M+Q G+ P      N + Y  
Sbjct: 320 LLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAP------NTITYNS 373

Query: 133 LIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG 192
           LIDG CK  +L+ A ++   +   G  P+++T+NI I+  C   ++D   +LF +M ++G
Sbjct: 374 LIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANRIDDGLELFREMSLRG 433

Query: 193 VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN 245
           V  N V + TL+  F +  +     +L + M  R V P      I++D L  N
Sbjct: 434 VIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIVSYKILLDGLCDN 486

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	259
359479583	627	PREDICTED: pentatricopeptide repeat-cont	0.922	0.381	0.424	1e-49
449529622	618	PREDICTED: pentatricopeptide repeat-cont	0.976	0.409	0.393	4e-49
449520325	605	PREDICTED: pentatricopeptide repeat-cont	0.976	0.418	0.374	2e-45
302806665	1636	hypothetical protein SELMODRAFT_424099 [	0.899	0.142	0.372	6e-44
449462483	917	PREDICTED: pentatricopeptide repeat-cont	0.942	0.266	0.362	1e-42
449531171	761	PREDICTED: putative pentatricopeptide re	0.942	0.320	0.362	1e-42
302809105	725	hypothetical protein SELMODRAFT_123660 [	0.864	0.308	0.378	8e-42
225452994	588	PREDICTED: putative pentatricopeptide re	0.868	0.382	0.402	1e-41
147768816	653	hypothetical protein VITISV_031897 [Viti	0.868	0.344	0.402	1e-41
296087909	1001	unnamed protein product [Vitis vinifera]	0.868	0.224	0.402	2e-41

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

 Score =  202 bits (514), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 104/245 (42%), Positives = 145/245 (59%), Gaps = 6/245 (2%)

Query: 1   MANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHG 60
           M NGN  FGV  KPN V Y TIID LCK+G +DK KELFL+MK   I+P+VV Y+S+IHG
Sbjct: 223 MLNGNGGFGVTIKPNLVCYCTIIDSLCKDGLIDKGKELFLEMKGRGISPDVVAYSSIIHG 282

Query: 61  FCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPD 120
            C+      A+ LF EM+D G+  +VVTFNV++D LCK  KM+EA  LL LMIQ G  PD
Sbjct: 283 MCHTGRWEGAKGLFNEMVDEGVHPNVVTFNVLIDALCKAGKMEEANHLLKLMIQRGESPD 342

Query: 121 AFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDK 180
            F       Y  LIDG C  G++ +AR+L  S+   G+  + V+YN+ I+  C   +M +
Sbjct: 343 TF------TYNTLIDGFCLEGRIDDARDLFVSMESKGIETDAVSYNVLINGYCKSGRMVE 396

Query: 181 AHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVD 240
           A  L+ +M  K + P  + + TL+    R+ +      L   M   ++ P +   +I++D
Sbjct: 397 AKKLYREMMCKEIMPTVITYNTLLTGLFREGKVRDAWNLFGEMKVHDLTPESCTYNILLD 456

Query: 241 LLVKN 245
            L KN
Sbjct: 457 GLCKN 461

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  201 bits (510), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 102/259 (39%), Positives = 158/259 (61%), Gaps = 6/259 (2%)

Query: 1   MANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHG 60
           M N   ++GV CKP  +TY+ IIDGLCK G  D+AKELF +MK + + P+V++Y++LIHG
Sbjct: 222 MLNDASQYGVNCKPGVITYSIIIDGLCKVGREDEAKELFEEMKAQGMIPDVISYSTLIHG 281

Query: 61  FCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPD 120
           FC A   +++++LF EM+D+G+Q D+VTF+V++D LCK  K+ EA +LL++MIQ G+ P 
Sbjct: 282 FCCAGKWDQSKHLFDEMVDQGVQPDMVTFSVLIDTLCKEGKVTEAKKLLEVMIQRGIVP- 340

Query: 121 AFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDK 180
                N++ Y  LIDG C +G L +AREL  S+   GL P+ ++Y   I+  C   ++ +
Sbjct: 341 -----NLITYNSLIDGFCMVGDLNSARELFLSMPSKGLEPDEISYTTLINGYCKTWKVKE 395

Query: 181 AHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVD 240
           A +L+ +M   G +PN   + TL+    +K +     +L   M    V   + I  I +D
Sbjct: 396 AMNLYNEMLQVGKSPNVTTYGTLLKGLFQKGKVGDAKKLFGVMKTYGVSANSQIYGIFLD 455

Query: 241 LLVKNEISLNSIPQFNRQK 259
            L KN+    ++  FN  K
Sbjct: 456 GLCKNDCLFEAMELFNELK 474

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  188 bits (477), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 97/259 (37%), Positives = 151/259 (58%), Gaps = 6/259 (2%)

Query: 1   MANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHG 60
           M N    + + CKPN +TYN I+DGLCK G  D+AK+LF +MK + + P++++YNSLIHG
Sbjct: 200 MLNDISRYEINCKPNVITYNIIVDGLCKVGREDEAKQLFEEMKTQGMIPSIISYNSLIHG 259

Query: 61  FCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPD 120
           FC A    E++ L  EM+D+GLQ D+VTFNV++D LCK  K+ EA +LL +MI+ G+ PD
Sbjct: 260 FCCAGKWEESKRLLDEMLDQGLQPDMVTFNVLIDTLCKEGKVIEAKKLLGVMIESGIVPD 319

Query: 121 AFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDK 180
                 +V Y  LI+G C +G L +AREL  S+   G  P+V++YN+ I+      ++++
Sbjct: 320 ------LVTYNSLIEGFCMVGDLNSARELFVSMPSKGCEPDVISYNVLINGYSKTLKVEE 373

Query: 181 AHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVD 240
           A  L+ +M + G  PN + + +L+       +     +L   M    +   +    I +D
Sbjct: 374 AMKLYNEMLLVGKRPNVITYDSLLKGIFLAGKVDDAKKLFSVMKAHGIAENSYTYGIFLD 433

Query: 241 LLVKNEISLNSIPQFNRQK 259
            L KN+    ++  F   K
Sbjct: 434 GLCKNDCLFEAMKLFTELK 452

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302806665|ref|XP_002985064.1| hypothetical protein SELMODRAFT_424099 [Selaginella moellendorffii] gi|300147274|gb|EFJ13939.1| hypothetical protein SELMODRAFT_424099 [Selaginella moellendorffii]

 Score =  183 bits (465), Expect = 6e-44,   Method: Compositional matrix adjust.
 Identities = 89/239 (37%), Positives = 138/239 (57%), Gaps = 6/239 (2%)

Query: 6   REFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN 65
           RE    C P++VTYNT+I+GL K   +D A  L  +M D    PNV +YN+++HGFC AN
Sbjct: 220 REMSKTCPPDSVTYNTMINGLSKSDRLDDAIRLLEEMVDNGFAPNVFSYNTVLHGFCKAN 279

Query: 66  DGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEI 125
               A +L  +M+ RG   DVV++  +++ LCK  ++DEA R++D MIQ G +P      
Sbjct: 280 RVENALWLLEQMVTRGCPPDVVSYTTVINGLCKLDQVDEACRVMDKMIQRGCQP------ 333

Query: 126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLF 185
           N++ YG L+DG C++G L  A EL + +T  G  PN +TYN  +H  C    M++AH + 
Sbjct: 334 NVITYGTLVDGFCRVGDLDGAVELVRKMTERGYRPNAITYNNIMHVFCRRNDMERAHQVL 393

Query: 186 LDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVK 244
             M   G  P+ + ++T++  F +  +  +  +LL  M +R   P  + LS ++D L K
Sbjct: 394 QMMIQTGCPPDAINYSTIISGFCKAGKLREAHDLLEQMIRRGCRPDVACLSTLIDALCK 452

Source: Selaginella moellendorffii

Species: Selaginella moellendorffii

Genus: Selaginella

Family: Selaginellaceae

Order: Selaginellales

Class: Isoetopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462483|ref|XP_004148970.1| PREDICTED: pentatricopeptide repeat-containing protein At5g65560-like [Cucumis sativus]

 Score =  179 bits (453), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 101/279 (36%), Positives = 151/279 (54%), Gaps = 35/279 (12%)

Query: 1   MANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHG 60
           M +    +G+ CKPN ++Y+ IIDGLCK G  D+A+ELF +MK   + P+V++Y SLIHG
Sbjct: 624 MLSDTSPYGINCKPNAISYSIIIDGLCKCGREDEARELFKEMKALGVIPDVISYTSLIHG 683

Query: 61  FCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPD 120
           FC +    +A+YLF EM+D G+Q DV TF+V++D LCK  K+ EA  LL++MIQ G  P+
Sbjct: 684 FCRSGKWKDAKYLFNEMVDIGVQPDVTTFSVLIDMLCKEGKVIEANELLEVMIQRGCIPN 743

Query: 121 AF-----------------------------CEINIVAYGCLIDGLCKIGKLKNARELSQ 151
                                          C  ++V YG L+ GLC+ G +K A EL +
Sbjct: 744 TVTYTTLVKGLCMNDRISEATQLFMKMQKLGCLPDVVTYGTLMKGLCQTGNIKTALELHK 803

Query: 152 S-LTRAG-----LMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP 205
             L+  G       P+V++Y+I I  LC   + D+A +LF +M+  GV PN + +T+L+ 
Sbjct: 804 KMLSDTGQYGTNFKPDVISYSIIIDGLCKHGREDEARELFKEMKALGVIPNVISYTSLIH 863

Query: 206 SFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVK 244
            F R  +      L   M  + V   A   S+++    K
Sbjct: 864 GFCRSGKLEDAKHLFNEMVDQGVQLNAVTYSVMIHGFCK 902

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449531171|ref|XP_004172561.1| PREDICTED: putative pentatricopeptide repeat-containing protein At5g59900-like [Cucumis sativus]

 Score =  179 bits (453), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 101/279 (36%), Positives = 151/279 (54%), Gaps = 35/279 (12%)

Query: 1   MANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHG 60
           M +    +G+ CKPN ++Y+ IIDGLCK G  D+A+ELF +MK   + P+V++Y SLIHG
Sbjct: 468 MLSDTSPYGINCKPNAISYSIIIDGLCKCGREDEARELFKEMKALGVIPDVISYTSLIHG 527

Query: 61  FCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPD 120
           FC +    +A+YLF EM+D G+Q DV TF+V++D LCK  K+ EA  LL++MIQ G  P+
Sbjct: 528 FCRSGKWKDAKYLFNEMVDIGVQPDVTTFSVLIDMLCKEGKVIEANELLEVMIQRGCIPN 587

Query: 121 AF-----------------------------CEINIVAYGCLIDGLCKIGKLKNARELSQ 151
                                          C  ++V YG L+ GLC+ G +K A EL +
Sbjct: 588 TVTYTTLVKGLCMNDRISEATQLFMKMQKLGCLPDVVTYGTLMKGLCQTGNIKTALELHK 647

Query: 152 S-LTRAG-----LMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP 205
             L+  G       P+V++Y+I I  LC   + D+A +LF +M+  GV PN + +T+L+ 
Sbjct: 648 KMLSDTGQYGTNFKPDVISYSIIIDGLCKHGREDEARELFKEMKALGVIPNVISYTSLIH 707

Query: 206 SFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVK 244
            F R  +      L   M  + V   A   S+++    K
Sbjct: 708 GFCRSGKLEDAKHLFNEMVDQGVQLNAVTYSVMIHGFCK 746

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302809105|ref|XP_002986246.1| hypothetical protein SELMODRAFT_123660 [Selaginella moellendorffii] gi|300146105|gb|EFJ12777.1| hypothetical protein SELMODRAFT_123660 [Selaginella moellendorffii]

 Score =  176 bits (446), Expect = 8e-42,   Method: Compositional matrix adjust.
 Identities = 89/235 (37%), Positives = 139/235 (59%), Gaps = 11/235 (4%)

Query: 6   REFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN 65
           RE    C P++VTYNT+I+GL K   +D A  L  +M D    PNV +YN+++HGFC AN
Sbjct: 34  REMSKTCPPDSVTYNTMINGLSKSDRLDDAIRLLEEMVDNGFAPNVFSYNTVLHGFCKAN 93

Query: 66  DGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEI 125
               A +L  +M+ RG   DVV++  +++ LCK  ++DEA R++D MIQ G +P      
Sbjct: 94  RVENALWLLEQMVMRGCPPDVVSYTTVINGLCKLDQVDEACRVMDKMIQRGCQP------ 147

Query: 126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLF 185
           N++ YG L+DG C++G L  A EL + +T  G  PN +TYN  +H LC+  ++D A  LF
Sbjct: 148 NVITYGTLVDGFCRVGDLDGAVELVRKMTERGYRPNAITYNNIMHGLCSGRKLDSALQLF 207

Query: 186 LDMEVKG-VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR----NVMPYASIL 235
            +ME  G   P+   ++T++ S ++  +      L+ +M  +    NV+ Y+S+L
Sbjct: 208 KEMEESGSCPPDVFTYSTIVDSLVKSGKVDDACRLVEAMVSKGCSPNVVTYSSLL 262

Source: Selaginella moellendorffii

Species: Selaginella moellendorffii

Genus: Selaginella

Family: Selaginellaceae

Order: Selaginellales

Class: Isoetopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452994|ref|XP_002263091.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g12700, mitochondrial-like [Vitis vinifera]

 Score =  176 bits (445), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 93/231 (40%), Positives = 132/231 (57%), Gaps = 6/231 (2%)

Query: 12  CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAE 71
           C  N ++YNT+I+G CK   VDKA  LF +M  + + PN VTYN+LIHG C+     +A 
Sbjct: 346 CVANVISYNTLINGYCKIQSVDKAMYLFEEMSRQELTPNTVTYNTLIHGLCHVGRLQDAI 405

Query: 72  YLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYG 131
            LF EM+ RG   D+VT+  + D LCKNR +D+A  LL  +      PD      I  Y 
Sbjct: 406 SLFHEMVARGQIPDLVTYRTLSDYLCKNRHLDKAMALLKAIEGSNWDPD------IQIYT 459

Query: 132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK 191
            ++DG+C+ G+L++AR+L  +L+  GL PNV TYNI IH LC    + +A  LF +M   
Sbjct: 460 TILDGMCRAGELEDARDLFSNLSSKGLQPNVWTYNIMIHGLCKQGLLAEASKLFSEMNKN 519

Query: 192 GVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLL 242
           G +PN   +  +   F+R NE  + IELL  M  R      S  +++V +L
Sbjct: 520 GCSPNDCTYNLITRGFLRNNEALRTIELLEEMLARGFSVDVSTTTLLVGML 570

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147768816|emb|CAN62673.1| hypothetical protein VITISV_031897 [Vitis vinifera]

 Score =  175 bits (444), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 93/231 (40%), Positives = 132/231 (57%), Gaps = 6/231 (2%)

Query: 12  CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAE 71
           C  N ++YNT+I+G CK   VDKA  LF +M  + + PN VTYN+LIHG C+     +A 
Sbjct: 346 CVANVISYNTLINGYCKIQSVDKAMYLFEEMSRQELTPNTVTYNTLIHGLCHVGRLQDAI 405

Query: 72  YLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYG 131
            LF EM+ RG   D+VT+  + D LCKNR +D+A  LL  +      PD      I  Y 
Sbjct: 406 SLFHEMVARGQIPDLVTYRTLSDYLCKNRHLDKAMALLKAIEGSNWDPD------IQIYT 459

Query: 132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK 191
            ++DG+C+ G+L++AR+L  +L+  GL PNV TYNI IH LC    + +A  LF +M   
Sbjct: 460 TILDGMCRAGELEDARDLFSNLSSKGLQPNVWTYNIMIHGLCKQGLLAEASKLFSEMNKN 519

Query: 192 GVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLL 242
           G +PN   +  +   F+R NE  + IELL  M  R      S  +++V +L
Sbjct: 520 GCSPNDCTYNLITRGFLRNNEALRTIELLEEMLARGFSVDVSTTTLLVGML 570

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296087909|emb|CBI35192.3| unnamed protein product [Vitis vinifera]

 Score =  175 bits (443), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 93/231 (40%), Positives = 132/231 (57%), Gaps = 6/231 (2%)

Query: 12  CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAE 71
           C  N ++YNT+I+G CK   VDKA  LF +M  + + PN VTYN+LIHG C+     +A 
Sbjct: 286 CVANVISYNTLINGYCKIQSVDKAMYLFEEMSRQELTPNTVTYNTLIHGLCHVGRLQDAI 345

Query: 72  YLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYG 131
            LF EM+ RG   D+VT+  + D LCKNR +D+A  LL  +      PD      I  Y 
Sbjct: 346 SLFHEMVARGQIPDLVTYRTLSDYLCKNRHLDKAMALLKAIEGSNWDPD------IQIYT 399

Query: 132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK 191
            ++DG+C+ G+L++AR+L  +L+  GL PNV TYNI IH LC    + +A  LF +M   
Sbjct: 400 TILDGMCRAGELEDARDLFSNLSSKGLQPNVWTYNIMIHGLCKQGLLAEASKLFSEMNKN 459

Query: 192 GVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLL 242
           G +PN   +  +   F+R NE  + IELL  M  R      S  +++V +L
Sbjct: 460 GCSPNDCTYNLITRGFLRNNEALRTIELLEEMLARGFSVDVSTTTLLVGML 510

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	259
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.849	0.349	0.358	4.8e-36
TAIR|locus:2139732	566	AT4G11690 [Arabidopsis thalian	0.907	0.415	0.333	3.5e-35
TAIR|locus:2089388	507	AT3G16710 [Arabidopsis thalian	0.891	0.455	0.354	5.1e-35
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.822	0.282	0.351	1.3e-34
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.868	0.357	0.333	1.4e-34
TAIR|locus:2031301	577	AT1G63400 [Arabidopsis thalian	0.814	0.365	0.364	2.8e-34
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.876	0.352	0.347	3.3e-34
TAIR|locus:2174165	504	AT5G16640 [Arabidopsis thalian	0.891	0.458	0.358	9.5e-34
TAIR|locus:2038451	323	AT1G63230 [Arabidopsis thalian	0.884	0.708	0.326	9.5e-34
TAIR|locus:2034760	637	AT1G12300 [Arabidopsis thalian	0.922	0.375	0.346	2.4e-33

TAIR|locus:2015494 RPF3 "RNA processing factor 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 393 (143.4 bits), Expect = 4.8e-36, P = 4.8e-36
 Identities = 81/226 (35%), Positives = 127/226 (56%)

Query:    14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYL 73
             P+  TY+++I+G C    +D+AK +F  M  ++  PNVVTYN+LI GFC A    E   L
Sbjct:   358 PDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEEGMEL 417

Query:    74 FIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCL 133
             F EM  RGL  + VT+N ++  L +    D A ++   M+  GV PD      I+ Y  L
Sbjct:   418 FREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPD------IITYSIL 471

Query:   134 IDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGV 193
             +DGLCK GKL+ A  + + L ++ + P++ TYNI I  +C   +++   DLF  + +KGV
Sbjct:   472 LDGLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGV 531

Query:   194 APNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIV 239
              PN +I+TT++  F RK    +   L R M +   +P +   + ++
Sbjct:   532 KPNVIIYTTMISGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLI 577

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

TAIR|locus:2139732 AT4G11690 [Arabidopsis thaliana (taxid:3702)]

 Score = 382 (139.5 bits), Expect = 3.5e-35, P = 3.5e-35
 Identities = 81/243 (33%), Positives = 138/243 (56%)

Query:     6 REFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN 65
             RE GV C  N VTYNT+I GLC+E  +++A ++  QMK + INPN++TYN+LI GFC   
Sbjct:   295 RERGVSC--NIVTYNTLIGGLCREMKLNEANKVVDQMKSDGINPNLITYNTLIDGFCGVG 352

Query:    66 DGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEI 125
                +A  L  ++  RGL   +VT+N+++   C+      A +++  M + G++P      
Sbjct:   353 KLGKALSLCRDLKSRGLSPSLVTYNILVSGFCRKGDTSGAAKMVKEMEERGIKPSK---- 408

Query:   126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLF 185
               V Y  LID   +   ++ A +L  S+   GL+P+V TY++ IH  C   QM++A  LF
Sbjct:   409 --VTYTILIDTFARSDNMEKAIQLRLSMEELGLVPDVHTYSVLIHGFCIKGQMNEASRLF 466

Query:   186 LDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN 245
               M  K   PN VI+ T++  + ++  + + ++LL+ M+++ + P  +    ++++L K 
Sbjct:   467 KSMVEKNCEPNEVIYNTMILGYCKEGSSYRALKLLKEMEEKELAPNVASYRYMIEVLCKE 526

Query:   246 EIS 248
               S
Sbjct:   527 RKS 529

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2089388 AT3G16710 [Arabidopsis thaliana (taxid:3702)]

 Score = 379 (138.5 bits), Expect = 5.1e-35, P = 5.1e-35
 Identities = 84/237 (35%), Positives = 121/237 (51%)

Query:     9 GVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGN 68
             G+  KPN VTY T+I  LCK   ++ A ELF QM      PNVVTYN+L+ G C      
Sbjct:   181 GMGFKPNVVTYTTLIRCLCKNRHLNHAVELFNQMGTNGSRPNVVTYNALVTGLCEIGRWG 240

Query:    69 EAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIV 128
             +A +L  +MM R ++ +V+TF  ++D   K  K+ EA  L ++MIQ  V PD F      
Sbjct:   241 DAAWLLRDMMKRRIEPNVITFTALIDAFVKVGKLMEAKELYNVMIQMSVYPDVF------ 294

Query:   129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDM 188
              YG LI+GLC  G L  AR++   + R G  PN V Y   IH  C  ++++    +F +M
Sbjct:   295 TYGSLINGLCMYGLLDEARQMFYLMERNGCYPNEVIYTTLIHGFCKSKRVEDGMKIFYEM 354

Query:   189 EVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN 245
               KGV  N + +T L+  +          E+   M  R   P     ++++D L  N
Sbjct:   355 SQKGVVANTITYTVLIQGYCLVGRPDVAQEVFNQMSSRRAPPDIRTYNVLLDGLCCN 411

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 383 (139.9 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 77/219 (35%), Positives = 127/219 (57%)

Query:    12 CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAE 71
             C+P+  TYN +ID LC +G +D+A  +  QM+      +V+TYN+LI GFC AN   EAE
Sbjct:   431 CEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCARSVITYNTLIDGFCKANKTREAE 490

Query:    72 YLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYG 131
              +F EM   G+  + VT+N ++D LCK+R++++A +L+D MI  G +PD +       Y 
Sbjct:   491 EIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEGQKPDKY------TYN 544

Query:   132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK 191
              L+   C+ G +K A ++ Q++T  G  P++VTY   I  LC   +++ A  L   +++K
Sbjct:   545 SLLTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTLISGLCKAGRVEVASKLLRSIQMK 604

Query:   192 GVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP 230
             G+      +  ++    RK +T++ I L R M ++N  P
Sbjct:   605 GINLTPHAYNPVIQGLFRKRKTTEAINLFREMLEQNEAP 643

GO:0005739 "mitochondrion" evidence=ISM

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

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

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

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

GO:0048481 "ovule development" evidence=RCA

TAIR|locus:2015208 AT1G63130 [Arabidopsis thaliana (taxid:3702)]

 Score = 380 (138.8 bits), Expect = 1.4e-34, P = 1.4e-34
 Identities = 77/231 (33%), Positives = 132/231 (57%)

Query:    12 CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAE 71
             C PN VTYNT+I G CK   VD+  ELF +M    +  N VTY +LIHGF  A + + A+
Sbjct:   392 CFPNVVTYNTLIKGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQ 451

Query:    72 YLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYG 131
              +F +M+  G+  D++T+++++D LC N K++ A  + + + +  + PD      I  Y 
Sbjct:   452 IVFKQMVSDGVLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPD------IYTYN 505

Query:   132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK 191
              +I+G+CK GK+++  +L  SL+  G+ PNVVTY   +   C     ++A  LF +M+ +
Sbjct:   506 IMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVVTYTTMMSGFCRKGLKEEADALFREMKEE 565

Query:   192 GVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLL 242
             G  P+   + TL+ + +R  + +   EL+R M     +  AS + ++ ++L
Sbjct:   566 GPLPDSGTYNTLIRAHLRDGDKAASAELIREMRSCRFVGDASTIGLVTNML 616

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2031301 AT1G63400 [Arabidopsis thaliana (taxid:3702)]

 Score = 375 (137.1 bits), Expect = 2.8e-34, P = 2.8e-34
 Identities = 79/217 (36%), Positives = 121/217 (55%)

Query:    14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYL 73
             P+  TY+++I+G C    +D+AK +F  M  ++  PNVVTYN+LI+GFC A   +E   L
Sbjct:   363 PDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLINGFCKAKRIDEGVEL 422

Query:    74 FIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCL 133
             F EM  RGL  + VT+  ++    + R  D A  +   M+  GV P      NI+ Y  L
Sbjct:   423 FREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGVHP------NIMTYNTL 476

Query:   134 IDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGV 193
             +DGLCK GKL+ A  + + L R+ + P + TYNI I  +C   +++   DLF  + +KGV
Sbjct:   477 LDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGV 536

Query:   194 APNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP 230
              P+ +I+ T++  F RK    +   L R M +   +P
Sbjct:   537 KPDVIIYNTMISGFCRKGLKEEADALFRKMREDGPLP 573

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 377 (137.8 bits), Expect = 3.3e-34, P = 3.3e-34
 Identities = 81/233 (34%), Positives = 130/233 (55%)

Query:    13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEY 72
             K + V Y+ IIDGLCK+G +D A  LF +M+ +    +++TYN+LI GFC A   ++   
Sbjct:   260 KLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAK 319

Query:    73 LFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC 132
             L  +M+ R +  +VVTF+V++D   K  K+ EA +LL  M+Q G+ P      N + Y  
Sbjct:   320 LLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAP------NTITYNS 373

Query:   133 LIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG 192
             LIDG CK  +L+ A ++   +   G  P+++T+NI I+  C   ++D   +LF +M ++G
Sbjct:   374 LIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANRIDDGLELFREMSLRG 433

Query:   193 VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN 245
             V  N V + TL+  F +  +     +L + M  R V P      I++D L  N
Sbjct:   434 VIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIVSYKILLDGLCDN 486

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 367 (134.2 bits), Expect = 9.5e-34, P = 9.5e-34
 Identities = 85/237 (35%), Positives = 125/237 (52%)

Query:     9 GVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGN 68
             G+  KPN V YNTIIDGLCK   VD A +L  +M+ + I P+VVTYNSLI G C +   +
Sbjct:   179 GMGYKPNVVIYNTIIDGLCKSKQVDNALDLLNRMEKDGIGPDVVTYNSLISGLCSSGRWS 238

Query:    69 EAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIV 128
             +A  +   M  R +  DV TFN ++D   K  ++ EA    + MI+  + PD      IV
Sbjct:   239 DATRMVSCMTKREIYPDVFTFNALIDACVKEGRVSEAEEFYEEMIRRSLDPD------IV 292

Query:   129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDM 188
              Y  LI GLC   +L  A E+   +   G  P+VVTY+I I+  C  ++++    LF +M
Sbjct:   293 TYSLLIYGLCMYSRLDEAEEMFGFMVSKGCFPDVVTYSILINGYCKSKKVEHGMKLFCEM 352

Query:   189 EVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN 245
               +GV  N V +T L+  + R  + +   E+ R M    V P     ++++  L  N
Sbjct:   353 SQRGVVRNTVTYTILIQGYCRAGKLNVAEEIFRRMVFCGVHPNIITYNVLLHGLCDN 409

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2038451 AT1G63230 [Arabidopsis thaliana (taxid:3702)]

 Score = 367 (134.2 bits), Expect = 9.5e-34, P = 9.5e-34
 Identities = 77/236 (32%), Positives = 129/236 (54%)

Query:    13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEY 72
             K + V YN IID LCK+G    A+ LF +M D+ I P+V+TY+ +I  FC +    +AE 
Sbjct:    73 KAHVVIYNAIIDRLCKDGHHIHAQNLFTEMHDKGIFPDVITYSGMIDSFCRSGRWTDAEQ 132

Query:    73 LFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC 132
             L  +M++R +  DVVTF+ +++ L K  K+ EA  +   M++ G+ P        + Y  
Sbjct:   133 LLRDMIERQINPDVVTFSALINALVKEGKVSEAEEIYGDMLRRGIFPTT------ITYNS 186

Query:   133 LIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG 192
             +IDG CK  +L +A+ +  S+      P+VVT++  I+  C  +++D   ++F +M  +G
Sbjct:   187 MIDGFCKQDRLNDAKRMLDSMASKSCSPDVVTFSTLINGYCKAKRVDNGMEIFCEMHRRG 246

Query:   193 VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP-YASILSIIVDLLVKNEI 247
             +  N V +TTL+  F +  +     +LL  M    V P Y +  S++  L  K E+
Sbjct:   247 IVANTVTYTTLIHGFCQVGDLDAAQDLLNVMISSGVAPNYITFQSMLASLCSKKEL 302

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 369 (135.0 bits), Expect = 2.4e-33, P = 2.4e-33
 Identities = 85/245 (34%), Positives = 127/245 (51%)

Query:    13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEY 72
             K + V Y+ IIDGLCK G +D A  LF +M+ + I  N++TYN LI GFC A   ++   
Sbjct:   260 KLDAVKYSIIIDGLCKHGSLDNAFNLFNEMEMKGITTNIITYNILIGGFCNAGRWDDGAK 319

Query:    73 LFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC 132
             L  +M+ R +  +VVTF+V++D   K  K+ EA  L   MI  G+ PD       + Y  
Sbjct:   320 LLRDMIKRKINPNVVTFSVLIDSFVKEGKLREAEELHKEMIHRGIAPDT------ITYTS 373

Query:   133 LIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG 192
             LIDG CK   L  A ++   +   G  PN+ T+NI I+  C   ++D   +LF  M ++G
Sbjct:   374 LIDGFCKENHLDKANQMVDLMVSKGCDPNIRTFNILINGYCKANRIDDGLELFRKMSLRG 433

Query:   193 VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSI 252
             V  + V + TL+  F    + +   EL + M  R V P      I++D L  N  S  ++
Sbjct:   434 VVADTVTYNTLIQGFCELGKLNVAKELFQEMVSRKVPPNIVTYKILLDGLCDNGESEKAL 493

Query:   253 PQFNR 257
               F +
Sbjct:   494 EIFEK 498

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	259
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-22
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-21
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-15
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-12
pfam12854	34	pfam12854, PPR_1, PPR repeat	8e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-11
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-09
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-08
pfam01535	31	pfam01535, PPR, PPR repeat	1e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-07
pfam01535	31	pfam01535, PPR, PPR repeat	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-04
pfam01535	31	pfam01535, PPR, PPR repeat	4e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	6e-04
pfam01535	31	pfam01535, PPR, PPR repeat	7e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	7e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001

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

 Score = 96.1 bits (239), Expect = 2e-22
 Identities = 54/229 (23%), Positives = 103/229 (44%), Gaps = 6/229 (2%)

Query: 13  KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEY 72
            P+ +T   ++      G VD+AKE++  + + NI      Y   ++      D + A  
Sbjct: 576 DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALS 635

Query: 73  LFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC 132
           ++ +M  +G++ D V F+ ++D       +D+A  +L    + G++         V+Y  
Sbjct: 636 IYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL------GTVSYSS 689

Query: 133 LIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG 192
           L+         K A EL + +    L P V T N  I ALC   Q+ KA ++  +M+  G
Sbjct: 690 LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLG 749

Query: 193 VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDL 241
           + PN + ++ L+ +  RK++    ++LL    +  + P   +   I  L
Sbjct: 750 LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGL 798

Length = 1060

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

 Score = 83.2 bits (207), Expect = 3e-21
 Identities = 28/49 (57%), Positives = 36/49 (73%)

Query: 14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFC 62
          P+ VTYNT+IDG CK+G V++A +LF +MK   I PNV TY+ LI G C
Sbjct: 1  PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 68.6 bits (169), Expect = 1e-15
 Identities = 24/50 (48%), Positives = 35/50 (70%)

Query: 49 PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK 98
          P+VVTYN+LI G+C      EA  LF EM  RG++ +V T+++++D LCK
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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 70.3 bits (172), Expect = 8e-14
 Identities = 56/222 (25%), Positives = 105/222 (47%), Gaps = 19/222 (8%)

Query: 22  IIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG 81
           +ID   K G ++ A+ +F  M ++      V +NS++ G+       EA  L+ EM D G
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEKT----TVAWNSMLAGYALHGYSEEALCLYYEMRDSG 320

Query: 82  LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG 141
           +  D  TF++++    +   ++ A +    +I+ G        ++IVA   L+D   K G
Sbjct: 321 VSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF------PLDIVANTALVDLYSKWG 374

Query: 142 KLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFT 201
           ++++AR +   + R     N++++N  I    N  +  KA ++F  M  +GVAPN V F 
Sbjct: 375 RMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFL 430

Query: 202 TLMP--SFIRKNETSKVIELLRSMDKR---NVMPYASILSII 238
            ++    +   +E    I    S + R     M YA ++ ++
Sbjct: 431 AVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELL 472

Length = 697

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

 Score = 70.3 bits (172), Expect = 1e-13
 Identities = 49/194 (25%), Positives = 86/194 (44%), Gaps = 8/194 (4%)

Query: 13  KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEY 72
           K +   Y T+I    K G VD   E+F +M +  +  NV T+ +LI G   A    +A  
Sbjct: 469 KADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFG 528

Query: 73  LFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGG--VRPDAFCEINIVAY 130
            +  M  + ++ D V FN ++    ++  +D A  +L  M      + PD       +  
Sbjct: 529 AYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDH------ITV 582

Query: 131 GCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEV 190
           G L+      G++  A+E+ Q +    +      Y I +++       D A  ++ DM+ 
Sbjct: 583 GALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK 642

Query: 191 KGVAPNCVIFTTLM 204
           KGV P+ V F+ L+
Sbjct: 643 KGVKPDEVFFSALV 656

Length = 1060

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

 Score = 60.5 bits (148), Expect = 1e-12
 Identities = 24/55 (43%), Positives = 35/55 (63%), Gaps = 6/55 (10%)

Query: 85  DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK 139
           DVVT+N ++D  CK  K++EA +L + M + G++P      N+  Y  LIDGLCK
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKP------NVYTYSILIDGLCK 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 = 59.7 bits (146), Expect = 3e-12
 Identities = 22/49 (44%), Positives = 31/49 (63%)

Query: 126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN 174
           ++V Y  LIDG CK GK++ A +L   + + G+ PNV TY+I I  LC 
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 58.1 bits (142), Expect = 8e-12
 Identities = 19/32 (59%), Positives = 25/32 (78%)

Query: 12 CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMK 43
           KP+ VTYNT+IDGLC+ G VD+A EL  +M+
Sbjct: 3  LKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 57.0 bits (139), Expect = 3e-11
 Identities = 16/48 (33%), Positives = 28/48 (58%)

Query: 160 PNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF 207
           P+VVTYN  I   C   ++++A  LF +M+ +G+ PN   ++ L+   
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 59.5 bits (144), Expect = 4e-10
 Identities = 52/217 (23%), Positives = 99/217 (45%), Gaps = 25/217 (11%)

Query: 14  PNTVTYNT-IIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEY 72
           P  +  NT ++D   K G ++ A+ +F +M  +N+    +++N+LI G+     G +A  
Sbjct: 357 PLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNL----ISWNALIAGYGNHGRGTKAVE 412

Query: 73  LFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQG-GVRPDAFCEINIVAYG 131
           +F  M+  G+  + VTF  ++     +   ++   +   M +   ++P A      + Y 
Sbjct: 413 MFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRA------MHYA 466

Query: 132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDL--FLDME 189
           C+I+ L + G L  A  +   + RA   P V  +     AL    ++ K  +L      +
Sbjct: 467 CMIELLGREGLLDEAYAM---IRRAPFKPTVNMWA----ALLTACRIHKNLELGRLAAEK 519

Query: 190 VKGVAP----NCVIFTTLMPSFIRKNETSKVIELLRS 222
           + G+ P    N V+   L  S  R+ E +KV+E L+ 
Sbjct: 520 LYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKR 556

Length = 697

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

 Score = 58.0 bits (140), Expect = 1e-09
 Identities = 39/183 (21%), Positives = 80/183 (43%), Gaps = 8/183 (4%)

Query: 48  NPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATR 107
           NP + T+N L+     + D + A  +   + + GL++D   +  ++    K+ K+D    
Sbjct: 434 NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFE 493

Query: 108 LLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNI 167
           +   M+  GV        N+  +G LIDG  + G++  A      +    + P+ V +N 
Sbjct: 494 VFHEMVNAGVEA------NVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNA 547

Query: 168 TIHALCNDEQMDKAHDLFLDM--EVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK 225
            I A      +D+A D+  +M  E   + P+ +    LM +     +  +  E+ + + +
Sbjct: 548 LISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHE 607

Query: 226 RNV 228
            N+
Sbjct: 608 YNI 610

Length = 1060

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

 Score = 54.9 bits (132), Expect = 1e-08
 Identities = 54/242 (22%), Positives = 96/242 (39%), Gaps = 49/242 (20%)

Query: 17  VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVT----------------------- 53
           +++N +I G  + G   +  ELF  M++ +++P+++T                       
Sbjct: 254 ISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGY 313

Query: 54  ------------YNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRK 101
                        NSLI  +       EAE +F  M  +    D V++  ++    KN  
Sbjct: 314 VVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGL 369

Query: 102 MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN 161
            D+A     LM Q  V PD   EI I +   ++     +G L    +L +   R GL+  
Sbjct: 370 PDKALETYALMEQDNVSPD---EITIAS---VLSACACLGDLDVGVKLHELAERKGLISY 423

Query: 162 VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLR 221
           VV  N  I      + +DKA ++F ++  K V    + +T+++      N   + +   R
Sbjct: 424 VVVANALIEMYSKCKCIDKALEVFHNIPEKDV----ISWTSIIAGLRLNNRCFEALIFFR 479

Query: 222 SM 223
            M
Sbjct: 480 QM 481

Length = 857

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

 Score = 54.5 bits (131), Expect = 2e-08
 Identities = 53/227 (23%), Positives = 101/227 (44%), Gaps = 17/227 (7%)

Query: 17  VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIE 76
           V  N +I+   K   +DKA E+F  + +++    V+++ S+I G    N   EA   F +
Sbjct: 425 VVANALIEMYSKCKCIDKALEVFHNIPEKD----VISWTSIIAGLRLNNRCFEALIFFRQ 480

Query: 77  MMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDG 136
           M+   L+ + VT    +    +   +     +   +++ G+  D F          L+D 
Sbjct: 481 MLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLP------NALLDL 533

Query: 137 LCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPN 196
             + G++  A   +Q  +      +VV++NI +       +   A +LF  M   GV P+
Sbjct: 534 YVRCGRMNYA--WNQFNSHE---KDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPD 588

Query: 197 CVIFTTLMPSFIRKNETSKVIELLRSM-DKRNVMPYASILSIIVDLL 242
            V F +L+ +  R    ++ +E   SM +K ++ P     + +VDLL
Sbjct: 589 EVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLL 635

Length = 857

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

 Score = 54.1 bits (130), Expect = 2e-08
 Identities = 57/271 (21%), Positives = 101/271 (37%), Gaps = 55/271 (20%)

Query: 6   REFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTY----------- 54
             FG + + +  ++N ++ G  K G+ D+A  L+ +M    + P+V T+           
Sbjct: 142 YVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIP 201

Query: 55  ------------------------NSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFN 90
                                   N+LI  +    D   A  +F    DR  + D +++N
Sbjct: 202 DLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVF----DRMPRRDCISWN 257

Query: 91  VIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEIN-IVAYGCLIDGLCKIGKLKNAREL 149
            ++    +N +  E   L   M +  V PD     + I A   L       G  +  RE+
Sbjct: 258 AMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELL-------GDERLGREM 310

Query: 150 SQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR 209
              + + G   +V   N  I    +     +A  +F  ME K      V +T ++  + +
Sbjct: 311 HGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDA----VSWTAMISGYEK 366

Query: 210 KNETSKVIELLRSMDKRNVMP----YASILS 236
                K +E    M++ NV P     AS+LS
Sbjct: 367 NGLPDKALETYALMEQDNVSPDEITIASVLS 397

Length = 857

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

 Score = 47.8 bits (115), Expect = 4e-08
 Identities = 22/35 (62%), Positives = 28/35 (80%)

Query: 17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNV 51
          VTYNT+IDGLCK G V++A ELF +MK+  I P+V
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 46.3 bits (111), Expect = 1e-07
 Identities = 15/31 (48%), Positives = 24/31 (77%)

Query: 17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENI 47
          VTYN++I G CK G +++A ELF +MK++ +
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 44.6 bits (107), Expect = 5e-07
 Identities = 16/33 (48%), Positives = 22/33 (66%)

Query: 157 GLMPNVVTYNITIHALCNDEQMDKAHDLFLDME 189
           GL P+VVTYN  I  LC   ++D+A +L  +ME
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 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 = 44.6 bits (107), Expect = 5e-07
 Identities = 16/32 (50%), Positives = 20/32 (62%)

Query: 46 NINPNVVTYNSLIHGFCYANDGNEAEYLFIEM 77
           + P+VVTYN+LI G C A   +EA  L  EM
Sbjct: 2  GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 44.6 bits (107), Expect = 6e-07
 Identities = 17/33 (51%), Positives = 25/33 (75%)

Query: 80  RGLQSDVVTFNVIMDELCKNRKMDEATRLLDLM 112
           +GL+ DVVT+N ++D LC+  ++DEA  LLD 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|144943 pfam01535, PPR, PPR repeat

 Score = 40.5 bits (96), Expect = 1e-05
 Identities = 17/31 (54%), Positives = 21/31 (67%)

Query: 52 VTYNSLIHGFCYANDGNEAEYLFIEMMDRGL 82
          VTYNSLI G+C A    EA  LF EM ++G+
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 40.1 bits (95), Expect = 2e-05
 Identities = 14/35 (40%), Positives = 22/35 (62%)

Query: 87  VTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDA 121
           VT+N ++D LCK  +++EA  L   M + G+ PD 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 40.1 bits (95), Expect = 2e-05
 Identities = 19/35 (54%), Positives = 23/35 (65%)

Query: 52 VTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDV 86
          VTYN+LI G C A    EA  LF EM +RG++ DV
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 41.4 bits (97), Expect = 3e-04
 Identities = 40/165 (24%), Positives = 73/165 (44%), Gaps = 15/165 (9%)

Query: 11  VCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEA 70
             + + V++N ++ G    G    A ELF +M +  +NP+ VT+ SL+     +    + 
Sbjct: 549 SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQG 608

Query: 71  EYLFIEMMDR-GLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVA 129
              F  M ++  +  ++  +  ++D L +  K+ EA   ++ M    + PD         
Sbjct: 609 LEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDP------AV 659

Query: 130 YGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN 174
           +G L++  C+I +     EL+       L PN V Y I    LCN
Sbjct: 660 WGALLNA-CRIHRHVELGELAAQHIFE-LDPNSVGYYIL---LCN 699

Length = 857

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

 Score = 37.1 bits (87), Expect = 3e-04
 Identities = 13/35 (37%), Positives = 23/35 (65%)

Query: 163 VTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNC 197
           VTYN  I  LC   ++++A +LF +M+ +G+ P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 36.3 bits (85), Expect = 4e-04
 Identities = 12/31 (38%), Positives = 18/31 (58%)

Query: 87  VTFNVIMDELCKNRKMDEATRLLDLMIQGGV 117
           VT+N ++   CK  K++EA  L   M + GV
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 36.2 bits (85), Expect = 5e-04
 Identities = 12/27 (44%), Positives = 18/27 (66%)

Query: 123 CEINIVAYGCLIDGLCKIGKLKNAREL 149
            + ++V Y  LIDGLC+ G++  A EL
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVEL 29

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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.0 bits (84), Expect = 6e-04
 Identities = 11/34 (32%), Positives = 16/34 (47%)

Query: 16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINP 49
            TYN ++  L K G  D A  +  +MK   + P
Sbjct: 1  LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 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|144943 pfam01535, PPR, PPR repeat

 Score = 35.9 bits (84), Expect = 7e-04
 Identities = 13/31 (41%), Positives = 20/31 (64%)

Query: 163 VTYNITIHALCNDEQMDKAHDLFLDMEVKGV 193
           VTYN  I   C   ++++A +LF +M+ KGV
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 36.0 bits (84), Expect = 7e-04
 Identities = 11/33 (33%), Positives = 17/33 (51%)

Query: 51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ 83
          + TYN+L+     A D + A  +  EM   GL+
Sbjct: 1  LETYNALLLALAKAGDPDLALAVLEEMKASGLK 33

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

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

 Score = 36.2 bits (85), Expect = 8e-04
 Identities = 11/17 (64%), Positives = 13/17 (76%)

Query: 12 CKPNTVTYNTIIDGLCK 28
           KPN  TY+ +IDGLCK
Sbjct: 34 IKPNVYTYSILIDGLCK 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 35.2 bits (82), Expect = 0.001
 Identities = 10/34 (29%), Positives = 18/34 (52%)

Query: 86  VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRP 119
           + T+N ++  L K    D A  +L+ M   G++P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	259
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
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.89
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.82
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.82
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.75
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.74
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.74
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.73
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.69
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.68
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.67
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.67
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.66
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.63
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.63
PF13041	50	PPR_2: PPR repeat family	99.62
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.61
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.6
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.58
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.58
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.57
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.57
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.56
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.55
KOG1126	638	consensus DNA-binding cell division cycle control	99.55
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.54
PRK12370	553	invasion protein regulator; Provisional	99.53
PF13041	50	PPR_2: PPR repeat family	99.53
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.53
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.53
KOG1129	478	consensus TPR repeat-containing protein [General f	99.52
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.5
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.49
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.48
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.47
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.45
PRK12370	553	invasion protein regulator; Provisional	99.45
PRK14574	822	hmsH outer membrane protein; Provisional	99.45
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.44
KOG1129	478	consensus TPR repeat-containing protein [General f	99.44
KOG1126	638	consensus DNA-binding cell division cycle control	99.43
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.41
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.39
PRK11189	296	lipoprotein NlpI; Provisional	99.37
PRK14574	822	hmsH outer membrane protein; Provisional	99.36
PRK11189	296	lipoprotein NlpI; Provisional	99.36
KOG2003	840	consensus TPR repeat-containing protein [General f	99.35
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.31
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.3
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.3
KOG2076	895	consensus RNA polymerase III transcription factor	99.27
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.26
KOG2003	840	consensus TPR repeat-containing protein [General f	99.23
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.19
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.18
PF12854	34	PPR_1: PPR repeat	99.16
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.14
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.13
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.09
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.09
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.07
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.04
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.04
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.04
PLN02789	320	farnesyltranstransferase	99.03
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.02
PF12854	34	PPR_1: PPR repeat	99.02
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.01
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.0
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.98
KOG2076	895	consensus RNA polymerase III transcription factor	98.98
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.98
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.96
KOG1125	579	consensus TPR repeat-containing protein [General f	98.96
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.94
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.92
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.9
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.89
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.89
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.88
PRK15359	144	type III secretion system chaperone protein SscB;	98.86
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.86
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.85
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.85
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.81
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.81
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.79
PRK15359	144	type III secretion system chaperone protein SscB;	98.79
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.78
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.78
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.72
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.71
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.71
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.7
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.66
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.64
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.64
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.63
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.63
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.63
KOG1125	579	consensus TPR repeat-containing protein [General f	98.63
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.63
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.61
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.61
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.61
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.6
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.59
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.58
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.57
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.56
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.56
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.54
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.54
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.52
PLN02789	320	farnesyltranstransferase	98.51
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.51
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.49
PRK04841	903	transcriptional regulator MalT; Provisional	98.49
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.48
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.48
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.46
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.42
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.41
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.4
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.39
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.36
PRK04841	903	transcriptional regulator MalT; Provisional	98.35
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.35
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.34
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.33
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.32
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.32
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.31
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.29
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.29
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.29
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.28
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.27
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.26
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.25
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.25
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.25
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.25
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.24
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.24
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.23
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.22
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.2
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.18
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.18
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.17
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.17
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.16
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.15
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.15
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.14
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.13
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.13
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.1
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.1
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.09
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	98.09
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.08
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.06
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.02
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.02
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.01
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	98.0
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.99
PF12688	120	TPR_5: Tetratrico peptide repeat	97.95
PF12688	120	TPR_5: Tetratrico peptide repeat	97.92
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.9
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.85
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.84
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.82
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.82
KOG0553	304	consensus TPR repeat-containing protein [General f	97.81
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.79
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.78
KOG0553	304	consensus TPR repeat-containing protein [General f	97.78
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.74
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.74
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.73
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.71
PRK10803	263	tol-pal system protein YbgF; Provisional	97.71
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.69
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.68
PRK10803	263	tol-pal system protein YbgF; Provisional	97.66
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.63
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.62
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.58
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.58
KOG3941	406	consensus Intermediate in Toll signal transduction	97.56
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.56
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.55
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.46
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.43
PRK15331	165	chaperone protein SicA; Provisional	97.36
PF13371	73	TPR_9: Tetratricopeptide repeat	97.32
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.3
PF13371	73	TPR_9: Tetratricopeptide repeat	97.27
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.2
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	97.13
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.11
smart00299	140	CLH Clathrin heavy chain repeat homology.	97.09
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	97.07
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.05
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.01
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.0
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.96
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.94
KOG3941	406	consensus Intermediate in Toll signal transduction	96.92
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.88
PF13512	142	TPR_18: Tetratricopeptide repeat	96.86
PRK15331	165	chaperone protein SicA; Provisional	96.86
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.78
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.76
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.69
PF13512	142	TPR_18: Tetratricopeptide repeat	96.65
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.62
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.61
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.6
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.57
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	96.56
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.49
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.45
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.42
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	96.4
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.38
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.34
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.33
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.28
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.15
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.14
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.12
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.07
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.01
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.93
PF13428	44	TPR_14: Tetratricopeptide repeat	95.86
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.82
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.81
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.81
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.81
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.75
PF13428	44	TPR_14: Tetratricopeptide repeat	95.72
KOG4555	175	consensus TPR repeat-containing protein [Function	95.72
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.68
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.49
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.47
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.33
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.21
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.21
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.17
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	95.1
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.08
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.05
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.0
PRK11906	458	transcriptional regulator; Provisional	95.0
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.85
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	94.81
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	94.74
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.73
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.64
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.63
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.63
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	94.46
KOG1585	308	consensus Protein required for fusion of vesicles	94.42
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.42
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.34
KOG4555	175	consensus TPR repeat-containing protein [Function	94.3
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.07
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.02
KOG2041	1189	consensus WD40 repeat protein [General function pr	93.99
KOG1550	552	consensus Extracellular protein SEL-1 and related	93.98
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.93
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.86
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.48
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.46
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.39
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.37
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.27
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.26
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.25
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.07
PF13431	34	TPR_17: Tetratricopeptide repeat	93.03
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.97
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.71
PF13929	292	mRNA_stabil: mRNA stabilisation	92.41
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.41
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.41
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	92.28
PF13431	34	TPR_17: Tetratricopeptide repeat	92.23
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	92.22
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	91.9
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	91.87
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.66
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.54
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.54
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	91.43
PRK11906	458	transcriptional regulator; Provisional	91.41
COG1747	711	Uncharacterized N-terminal domain of the transcrip	91.4
COG4455	273	ImpE Protein of avirulence locus involved in tempe	91.38
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	91.02
KOG4234	271	consensus TPR repeat-containing protein [General f	90.6
COG4455	273	ImpE Protein of avirulence locus involved in tempe	90.58
PF13929	292	mRNA_stabil: mRNA stabilisation	90.34
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	90.31
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	90.3
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.16
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	90.07
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	90.04
PHA02875	413	ankyrin repeat protein; Provisional	89.98
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	89.86
KOG1586	288	consensus Protein required for fusion of vesicles	89.85
KOG1550	552	consensus Extracellular protein SEL-1 and related	89.78
COG3947	361	Response regulator containing CheY-like receiver a	89.44
COG1747	711	Uncharacterized N-terminal domain of the transcrip	89.24
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	88.94
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.94
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.85
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	88.76
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	88.65
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	88.35
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	88.27
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	88.21
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	88.07
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	87.91
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	87.7
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	87.63
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	87.5
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	87.4
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	87.37
KOG1585	308	consensus Protein required for fusion of vesicles	87.08
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	86.98
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	86.97
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	86.62
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	86.19
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	86.13
PRK10564	303	maltose regulon periplasmic protein; Provisional	84.66
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	84.45
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	84.06
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	83.26
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	83.24
PRK10564	303	maltose regulon periplasmic protein; Provisional	83.19
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	83.18
PF13762	145	MNE1: Mitochondrial splicing apparatus component	83.03
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	82.52
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	82.15
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	82.13
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	81.85
PHA02875	413	ankyrin repeat protein; Provisional	81.47
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	80.75
KOG4648	536	consensus Uncharacterized conserved protein, conta	80.66
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	80.49
KOG4507	886	consensus Uncharacterized conserved protein, conta	80.49
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	80.26
KOG1258	577	consensus mRNA processing protein [RNA processing	80.26
PRK09462	148	fur ferric uptake regulator; Provisional	80.07
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	80.06

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.8e-47  Score=321.56  Aligned_cols=240  Identities=18%  Similarity=0.333  Sum_probs=129.1

Q ss_pred             cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHH--cCCCCchhhHH
Q 036731           13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMD--RGLQSDVVTFN   90 (259)
Q Consensus        13 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~   90 (259)
                      .||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+
T Consensus       504 ~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTyn  583 (1060)
T PLN03218        504 EANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVG  583 (1060)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHH
Confidence            4444444444444444444444444444444444444444444444444444444444444444443  33444444455


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 036731           91 VIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIH  170 (259)
Q Consensus        91 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  170 (259)
                      .++.+|++.|++++|.++|++|.+.|+.|      +..+|+.+|.+|++.|++++|..+|++|.+.|+.||..+|+.++.
T Consensus       584 aLI~ay~k~G~ldeA~elf~~M~e~gi~p------~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~  657 (1060)
T PLN03218        584 ALMKACANAGQVDRAKEVYQMIHEYNIKG------TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVD  657 (1060)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHcCCCC------ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            55555555555555555555444444444      235555555555555555555555555555555555555555555


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCC
Q 036731          171 ALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLN  250 (259)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  250 (259)
                      +|++.|++++|.+++++|.+.|+.||..+|+.|+.+|++.|++++|.++|++|.+.|+.|+..+|+.++.+|++.|++++
T Consensus       658 a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~ee  737 (1060)
T PLN03218        658 VAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPK  737 (1060)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHH
Confidence            55555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             cchhhhcc
Q 036731          251 SIPQFNRQ  258 (259)
Q Consensus       251 a~~~~~~~  258 (259)
                      |+++|++|
T Consensus       738 Alelf~eM  745 (1060)
T PLN03218        738 ALEVLSEM  745 (1060)
T ss_pred             HHHHHHHH
Confidence            55555554

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.7e-47  Score=320.82  Aligned_cols=244  Identities=22%  Similarity=0.313  Sum_probs=203.4

Q ss_pred             cccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhh
Q 036731            9 GVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVT   88 (259)
Q Consensus         9 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   88 (259)
                      +.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+
T Consensus       465 ~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vT  544 (1060)
T PLN03218        465 EAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVV  544 (1060)
T ss_pred             HcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHH
Confidence            44566777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh--CCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHH
Q 036731           89 FNVIMDELCKNRKMDEATRLLDLMIQ--GGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYN  166 (259)
Q Consensus        89 ~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  166 (259)
                      |+.++.+|++.|++++|.++|++|..  .++.|      |..+|+.++.+|++.|++++|.++|+.|.+.|+.|+..+|+
T Consensus       545 YnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~P------D~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tyn  618 (1060)
T PLN03218        545 FNALISACGQSGAVDRAFDVLAEMKAETHPIDP------DHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYT  618 (1060)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCC------cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHH
Confidence            77777777777777777777777765  34555      55889999999999999999999999998888888889999


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhc
Q 036731          167 ITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNE  246 (259)
Q Consensus       167 ~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  246 (259)
                      .+|.+|++.|++++|..+|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.|+..+|+.++.+|++.|
T Consensus       619 sLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G  698 (1060)
T PLN03218        619 IAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAK  698 (1060)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCC
Confidence            99999999999999999999999889999999999999999999999999999999998888999999999999999999


Q ss_pred             ccCCcchhhhcc
Q 036731          247 ISLNSIPQFNRQ  258 (259)
Q Consensus       247 ~~~~a~~~~~~~  258 (259)
                      ++++|.++|++|
T Consensus       699 ~~eeA~~lf~eM  710 (1060)
T PLN03218        699 NWKKALELYEDI  710 (1060)
T ss_pred             CHHHHHHHHHHH
Confidence            999999988876

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

Probab=100.00  E-value=2.5e-44  Score=299.76  Aligned_cols=249  Identities=25%  Similarity=0.367  Sum_probs=159.7

Q ss_pred             CCCcccccccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHh----------------------------
Q 036731            2 ANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVT----------------------------   53 (259)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----------------------------   53 (259)
                      ++|.++|+.+.+||..+||++|.+|++.|++++|.++|++|.+.|+.|+..+                            
T Consensus       175 ~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g  254 (697)
T PLN03081        175 IDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTG  254 (697)
T ss_pred             HHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhC
Confidence            5688899999999999999999999999999999999999977666554333                            


Q ss_pred             -------HHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCc----
Q 036731           54 -------YNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAF----  122 (259)
Q Consensus        54 -------~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----  122 (259)
                             |+.|+.+|++.|++++|.++|++|..    +|..+|+.++.+|++.|+.++|.++|++|.+.|+.|+..    
T Consensus       255 ~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~  330 (697)
T PLN03081        255 VVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSI  330 (697)
T ss_pred             CCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence                   34444555555555555555554432    244455555555555555555555555555555444320    


Q ss_pred             -------------------------cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 036731          123 -------------------------CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQ  177 (259)
Q Consensus       123 -------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (259)
                                               ..+|..+|+.++.+|++.|++++|.++|++|.+    ||..+|+.+|.+|++.|+
T Consensus       331 ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~  406 (697)
T PLN03081        331 MIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGR  406 (697)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCC
Confidence                                     011335555555555555555555555555542    466666666666666666


Q ss_pred             hhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh-CCCccchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          178 MDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK-RNVMPYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       178 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                      .++|.++|++|.+.|+.||..||+.++.+|.+.|..++|.++|+.|.+ .|+.|+..+|+.++++|.+.|++++|.++++
T Consensus       407 ~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~  486 (697)
T PLN03081        407 GTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIR  486 (697)
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHH
Confidence            666666666666666777777777777777777777777777776654 4666666677777777777777777666665


Q ss_pred             cc
Q 036731          257 RQ  258 (259)
Q Consensus       257 ~~  258 (259)
                      +|
T Consensus       487 ~~  488 (697)
T PLN03081        487 RA  488 (697)
T ss_pred             HC
Confidence            54

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

Probab=100.00  E-value=5.2e-44  Score=297.86  Aligned_cols=243  Identities=17%  Similarity=0.303  Sum_probs=227.3

Q ss_pred             CCCcccccccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcC
Q 036731            2 ANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG   81 (259)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~   81 (259)
                      ++|.++|+.+.++|+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|
T Consensus       276 ~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g  355 (697)
T PLN03081        276 EDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTG  355 (697)
T ss_pred             HHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhC
Confidence            57889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 036731           82 LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN  161 (259)
Q Consensus        82 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  161 (259)
                      +.||..+++.|+.+|++.|++++|.++|++|.+    |      |..+|+.+|.+|++.|+.++|.++|++|.+.|+.||
T Consensus       356 ~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~------d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd  425 (697)
T PLN03081        356 FPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----K------NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPN  425 (697)
T ss_pred             CCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----C------CeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCC
Confidence            999999999999999999999999999999854    3      558999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHh-cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHH
Q 036731          162 VVTYNITIHALCNDEQMDKAHDLFLDMEV-KGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVD  240 (259)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  240 (259)
                      ..||+.++.+|++.|..++|.++|+.|.+ .|+.|+..+|+.++.+|++.|++++|.+++++|   ++.|+..+|+.++.
T Consensus       426 ~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~  502 (697)
T PLN03081        426 HVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLT  502 (697)
T ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHH
Confidence            99999999999999999999999999986 599999999999999999999999999998876   46788888888888


Q ss_pred             HHHHhcccCCcchhhhc
Q 036731          241 LLVKNEISLNSIPQFNR  257 (259)
Q Consensus       241 ~~~~~g~~~~a~~~~~~  257 (259)
                      +|...|+++.|..++++
T Consensus       503 a~~~~g~~~~a~~~~~~  519 (697)
T PLN03081        503 ACRIHKNLELGRLAAEK  519 (697)
T ss_pred             HHHHcCCcHHHHHHHHH
Confidence            88888888777776654

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.6e-42  Score=293.71  Aligned_cols=247  Identities=23%  Similarity=0.343  Sum_probs=209.3

Q ss_pred             CCCcccccccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcC
Q 036731            2 ANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG   81 (259)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~   81 (259)
                      ++|+++|+.+.+||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|
T Consensus       340 ~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g  419 (857)
T PLN03077        340 GEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKG  419 (857)
T ss_pred             HHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhC
Confidence            56889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHH------
Q 036731           82 LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTR------  155 (259)
Q Consensus        82 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------  155 (259)
                      +.|+..+|+.|+.+|++.|++++|.++|++|.+.          |..+|+.++.+|++.|+.++|..+|++|..      
T Consensus       420 ~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~----------d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~  489 (857)
T PLN03077        420 LISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----------DVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNS  489 (857)
T ss_pred             CCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCC----------CeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCH
Confidence            9999999999999999999999999988887543          224555555555555555555555555432      


Q ss_pred             ----------------------------cCC------------------------------CCChhhHHHHHHHHHhcCC
Q 036731          156 ----------------------------AGL------------------------------MPNVVTYNITIHALCNDEQ  177 (259)
Q Consensus       156 ----------------------------~~~------------------------------~~~~~~~~~li~~~~~~~~  177 (259)
                                                  .|+                              .||..+|+.+|.+|++.|+
T Consensus       490 ~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~  569 (857)
T PLN03077        490 VTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGK  569 (857)
T ss_pred             hHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCC
Confidence                                        111                              3456677888888888899


Q ss_pred             hhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHh-hCCCccchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          178 MDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMD-KRNVMPYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       178 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                      .++|.++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|++|. +.|+.|+..+|+.++++|.+.|++++|.++++
T Consensus       570 ~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~  649 (857)
T PLN03077        570 GSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFIN  649 (857)
T ss_pred             HHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999998 67889999999999999999999999999988


Q ss_pred             cc
Q 036731          257 RQ  258 (259)
Q Consensus       257 ~~  258 (259)
                      +|
T Consensus       650 ~m  651 (857)
T PLN03077        650 KM  651 (857)
T ss_pred             HC
Confidence            76

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3e-42  Score=293.35  Aligned_cols=243  Identities=18%  Similarity=0.260  Sum_probs=214.7

Q ss_pred             CCCcccccccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcC
Q 036731            2 ANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG   81 (259)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~   81 (259)
                      ++|+++|+.+.+||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+.+.+.+++..|.+.|
T Consensus       239 ~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g  318 (857)
T PLN03077        239 VSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTG  318 (857)
T ss_pred             HHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhC
Confidence            56788888888899999999999999999999999999999988999999999999999999999999999999999999


Q ss_pred             CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 036731           82 LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN  161 (259)
Q Consensus        82 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  161 (259)
                      +.||..+|+.|+.+|++.|++++|.++|++|..    |      |..+|+.++.+|++.|++++|..+|++|.+.|+.||
T Consensus       319 ~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~------d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd  388 (857)
T PLN03077        319 FAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----K------DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPD  388 (857)
T ss_pred             CccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----C------CeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCC
Confidence            999999999999999999999999999988853    2      447899999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHH
Q 036731          162 VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDL  241 (259)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  241 (259)
                      ..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+|+.|+.+|++.|++++|.++|++|.+    ++..+|+.++.+
T Consensus       389 ~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~  464 (857)
T PLN03077        389 EITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAG  464 (857)
T ss_pred             ceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999988864    456688888888


Q ss_pred             HHHhcccCCcchhhhcc
Q 036731          242 LVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       242 ~~~~g~~~~a~~~~~~~  258 (259)
                      |.+.|+.++|+++|++|
T Consensus       465 ~~~~g~~~eA~~lf~~m  481 (857)
T PLN03077        465 LRLNNRCFEALIFFRQM  481 (857)
T ss_pred             HHHCCCHHHHHHHHHHH
Confidence            88888888888888776

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.89  E-value=2.2e-20  Score=147.00  Aligned_cols=237  Identities=15%  Similarity=0.120  Sum_probs=144.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc---hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN---VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNV   91 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   91 (259)
                      +..++..+...+.+.|++++|..+++.+...+..++   ...+..+...|...|+++.|..+|+++.+.. +++..++..
T Consensus        68 ~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~  146 (389)
T PRK11788         68 TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQ  146 (389)
T ss_pred             cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHH
Confidence            445677777777777777777777777766432211   2456666777777777777777777776542 335566777


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 036731           92 IMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHA  171 (259)
Q Consensus        92 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  171 (259)
                      ++..+...|++++|.+.++.+.+.+..+..  ......+..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus       147 la~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~  223 (389)
T PRK11788        147 LLEIYQQEKDWQKAIDVAERLEKLGGDSLR--VEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDL  223 (389)
T ss_pred             HHHHHHHhchHHHHHHHHHHHHHhcCCcch--HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHH
Confidence            777777777777777777777654322210  0011234455566666677777777777666543 1234455556666


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCc
Q 036731          172 LCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNS  251 (259)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  251 (259)
                      +...|++++|.++++++.+.+......++..+..+|...|++++|.+.++++.+.  .|+...+..++..+.+.|++++|
T Consensus       224 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A  301 (389)
T PRK11788        224 ALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAA  301 (389)
T ss_pred             HHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHH
Confidence            6666777777777766665421112344566666666666666666666666654  24444556666666666666666


Q ss_pred             chhhhc
Q 036731          252 IPQFNR  257 (259)
Q Consensus       252 ~~~~~~  257 (259)
                      .++|++
T Consensus       302 ~~~l~~  307 (389)
T PRK11788        302 QALLRE  307 (389)
T ss_pred             HHHHHH
Confidence            666653

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=1.3e-19  Score=142.76  Aligned_cols=230  Identities=16%  Similarity=0.118  Sum_probs=193.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCch----hhHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDV----VTFNVI   92 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l   92 (259)
                      ..+..+...|.+.|++++|..+|+++.+.. +.+..++..++..+...|++++|.+.++.+.+.+..+..    ..+..+
T Consensus       108 ~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l  186 (389)
T PRK11788        108 LALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCEL  186 (389)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Confidence            568888999999999999999999998753 457788999999999999999999999999886544322    245567


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 036731           93 MDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHAL  172 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  172 (259)
                      ...+...|++++|...|+++.+..  |+     +...+..+...+.+.|++++|..+++++.+.+......++..++.+|
T Consensus       187 a~~~~~~~~~~~A~~~~~~al~~~--p~-----~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~  259 (389)
T PRK11788        187 AQQALARGDLDAARALLKKALAAD--PQ-----CVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECY  259 (389)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhHC--cC-----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHH
Confidence            788889999999999999998753  33     34688889999999999999999999998764333346788899999


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHH---hcccC
Q 036731          173 CNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVK---NEISL  249 (259)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~  249 (259)
                      ...|++++|...++++.+.  .|+...+..+...+.+.|++++|..+++++.+.  .|+...+..++..+..   .|+.+
T Consensus       260 ~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~  335 (389)
T PRK11788        260 QALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAK  335 (389)
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccch
Confidence            9999999999999999887  577777788999999999999999999998876  5888888888887765   55888


Q ss_pred             Ccchhhhcc
Q 036731          250 NSIPQFNRQ  258 (259)
Q Consensus       250 ~a~~~~~~~  258 (259)
                      +++.+++++
T Consensus       336 ~a~~~~~~~  344 (389)
T PRK11788        336 ESLLLLRDL  344 (389)
T ss_pred             hHHHHHHHH
Confidence            898888764

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

Probab=99.82  E-value=2e-17  Score=143.08  Aligned_cols=229  Identities=13%  Similarity=0.072  Sum_probs=152.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ..++..+...+...|++++|.++++.+.+.+ +.+...+..+...+...|++++|...|+.+...+  |+..++..+..+
T Consensus       669 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~  745 (899)
T TIGR02917       669 TEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRA  745 (899)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHH
Confidence            3444444444444444555544444444432 2344444555555555555555555555555442  233444555555


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND  175 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  175 (259)
                      +...|++++|.+.++++.+..  |+     +..++..+...|...|++++|..+|+++.+.. +.+..++..+...+...
T Consensus       746 ~~~~g~~~~A~~~~~~~l~~~--~~-----~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~  817 (899)
T TIGR02917       746 LLASGNTAEAVKTLEAWLKTH--PN-----DAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLEL  817 (899)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            666666666666666555432  22     45677777777777888888888888877764 34666777777777777


Q ss_pred             CChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhh
Q 036731          176 EQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQF  255 (259)
Q Consensus       176 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  255 (259)
                      |+ .+|..+++++.+.. +-+..++..+...+...|++++|.+.++++.+.+.. +..++..+..++.+.|+.++|.+++
T Consensus       818 ~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~  894 (899)
T TIGR02917       818 KD-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKEL  894 (899)
T ss_pred             Cc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHH
Confidence            77 77888888777652 234556677788888999999999999999987643 8889999999999999999999999


Q ss_pred             hcc
Q 036731          256 NRQ  258 (259)
Q Consensus       256 ~~~  258 (259)
                      +++
T Consensus       895 ~~~  897 (899)
T TIGR02917       895 DKL  897 (899)
T ss_pred             HHH
Confidence            876

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=99.82  E-value=3.9e-17  Score=141.30  Aligned_cols=225  Identities=14%  Similarity=0.140  Sum_probs=92.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK   98 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   98 (259)
                      +..+...+.+.|++++|..+++.+.+. .+.+..+|..+..++...|++++|...++.+.+.. +.+...+..+..++..
T Consensus       570 ~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  647 (899)
T TIGR02917       570 ALALAQYYLGKGQLKKALAILNEAADA-APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAV  647 (899)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            333444444444444444444444332 12233444444444444444444444444444332 1123334444444444


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh
Q 036731           99 NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQM  178 (259)
Q Consensus        99 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  178 (259)
                      .|++++|..+++++.+..  |+     +..++..++..+...|++++|..+++.+.+.+ +.+...+..+...+...|++
T Consensus       648 ~~~~~~A~~~~~~~~~~~--~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~  719 (899)
T TIGR02917       648 MKNYAKAITSLKRALELK--PD-----NTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDY  719 (899)
T ss_pred             cCCHHHHHHHHHHHHhcC--CC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCH
Confidence            444444444444443321  11     22344444444444444444444444443332 12333334444444444444


Q ss_pred             hHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          179 DKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       179 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                      ++|...++.+...  .|+..++..+..++.+.|++++|.+.++++.+.. +.+...+..+...|...|++++|++.|+
T Consensus       720 ~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~  794 (899)
T TIGR02917       720 PAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYR  794 (899)
T ss_pred             HHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            4444444444433  2222333344444444444444444444444332 2233344444444444444444444443

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.

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

Probab=99.75  E-value=2.2e-17  Score=124.01  Aligned_cols=244  Identities=16%  Similarity=0.110  Sum_probs=114.3

Q ss_pred             CCCcccccccc----cC-CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHH
Q 036731            2 ANGNREFGVVC----KP-NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIE   76 (259)
Q Consensus         2 ~~a~~~~~~~~----~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~   76 (259)
                      +.|.+++..+.    +| |+.-|..+...+...++++.|.+.++++...+.. +...+..++.. ...+++++|.+++..
T Consensus        25 ~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~~~A~~~~~~  102 (280)
T PF13429_consen   25 EKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDPEEALKLAEK  102 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccccccccccccccc
Confidence            45667775432    23 5556666677778899999999999999877533 56677777777 789999999999987


Q ss_pred             HHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731           77 MMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus        77 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      ..+.  .++...+..++..+...++++++..+++.+......++     +...|..+...+.+.|+.++|...+++..+.
T Consensus       103 ~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~-----~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~  175 (280)
T PF13429_consen  103 AYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPD-----SARFWLALAEIYEQLGDPDKALRDYRKALEL  175 (280)
T ss_dssp             -----------------H-HHHTT-HHHHHHHHHHHHH-T---T------HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH
T ss_pred             cccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            7665  35667788899999999999999999999875432222     6688999999999999999999999999987


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHH
Q 036731          157 GLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILS  236 (259)
Q Consensus       157 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  236 (259)
                      ... |......++..+...|+.+++..+++...+.. +.|+..+..+..++...|+.++|..++++..+.+ +.|..+..
T Consensus       176 ~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~  252 (280)
T PF13429_consen  176 DPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLL  252 (280)
T ss_dssp             -TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHH
T ss_pred             CCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cccccccc
Confidence            422 57788889999999999999999998887763 4566678899999999999999999999988763 44788889


Q ss_pred             HHHHHHHHhcccCCcchhhhc
Q 036731          237 IIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       237 ~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      .+.+++...|+.++|.++.++
T Consensus       253 ~~a~~l~~~g~~~~A~~~~~~  273 (280)
T PF13429_consen  253 AYADALEQAGRKDEALRLRRQ  273 (280)
T ss_dssp             HHHHHHT--------------
T ss_pred             ccccccccccccccccccccc
Confidence            999999999999999998765

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.74  E-value=9.6e-15  Score=121.35  Aligned_cols=229  Identities=13%  Similarity=0.042  Sum_probs=130.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ...+..+...+...|++++|...++.+.... +.+...+..+ ..+...|++++|...++.+.+....++......+..+
T Consensus       144 ~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~  221 (656)
T PRK15174        144 SQIFALHLRTLVLMDKELQAISLARTQAQEV-PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDT  221 (656)
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHH
Confidence            3344444444555555555555554443321 1111122111 2244455555555555554443222223333334455


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHH----HHHHHHHHHHcCCCCChhhHHHHHHH
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKN----ARELSQSLTRAGLMPNVVTYNITIHA  171 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~li~~  171 (259)
                      +...|++++|...+++.....  |+     +...+..+...+...|++++    |...+++..+... .+...+..+...
T Consensus       222 l~~~g~~~eA~~~~~~al~~~--p~-----~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P-~~~~a~~~lg~~  293 (656)
T PRK15174        222 LCAVGKYQEAIQTGESALARG--LD-----GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNS-DNVRIVTLYADA  293 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHhcC--CC-----CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCC-CCHHHHHHHHHH
Confidence            556666666666666655432  22     34666667777777777764    6777777766532 245567777777


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccch-HHHHHHHHHHHHhcccCC
Q 036731          172 LCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYA-SILSIIVDLLVKNEISLN  250 (259)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~  250 (259)
                      +...|++++|...+++..... +.+...+..+...+.+.|++++|...++++.+.+  |+. ..+..+..++...|+.++
T Consensus       294 l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~al~~~G~~de  370 (656)
T PRK15174        294 LIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAALLQAGKTSE  370 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHCCCHHH
Confidence            777777888877777777652 2234556667777777888888888887777653  332 333345566777788888


Q ss_pred             cchhhhc
Q 036731          251 SIPQFNR  257 (259)
Q Consensus       251 a~~~~~~  257 (259)
                      |++.|++
T Consensus       371 A~~~l~~  377 (656)
T PRK15174        371 AESVFEH  377 (656)
T ss_pred             HHHHHHH
Confidence            7777764

>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=99.74  E-value=1e-14  Score=121.17  Aligned_cols=232  Identities=13%  Similarity=0.026  Sum_probs=187.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +...|+.+...+...|++++|+..+++..+.. +-+...|..+...+...|++++|...|+...+.. +.+..+|..+..
T Consensus       330 ~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~  407 (615)
T TIGR00990       330 EAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQ  407 (615)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45678888888999999999999999998762 2246688888899999999999999999998774 335788899999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      .+...|++++|...|++..+..  |+     +...+..+..++.+.|++++|+..|++..+.. +.+...+..+..++..
T Consensus       408 ~~~~~g~~~~A~~~~~kal~l~--P~-----~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~  479 (615)
T TIGR00990       408 LHFIKGEFAQAGKDYQKSIDLD--PD-----FIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLD  479 (615)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcC--cc-----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            9999999999999999998753  43     45778889999999999999999999988763 3356788899999999


Q ss_pred             cCChhHHHHHHHHHHhcCCCCcH------HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhccc
Q 036731          175 DEQMDKAHDLFLDMEVKGVAPNC------VIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEIS  248 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~p~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  248 (259)
                      .|++++|...|++.....-..+.      ..++.....+...|++++|.+++++..+.+. .+...+..+...+...|++
T Consensus       480 ~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p-~~~~a~~~la~~~~~~g~~  558 (615)
T TIGR00990       480 QNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDP-ECDIAVATMAQLLLQQGDV  558 (615)
T ss_pred             ccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHccCH
Confidence            99999999999998876211111      1122222334457999999999999887642 3455788899999999999


Q ss_pred             CCcchhhhc
Q 036731          249 LNSIPQFNR  257 (259)
Q Consensus       249 ~~a~~~~~~  257 (259)
                      ++|++.|++
T Consensus       559 ~eAi~~~e~  567 (615)
T TIGR00990       559 DEALKLFER  567 (615)
T ss_pred             HHHHHHHHH
Confidence            999998875

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.73  E-value=1.6e-14  Score=120.00  Aligned_cols=231  Identities=14%  Similarity=0.062  Sum_probs=156.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +...+..+...+.+.|++++|...++++.+.. +.+...+..+...+...|++++|...++.+...... +...+..+ .
T Consensus       109 ~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~  185 (656)
T PRK15174        109 QPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-L  185 (656)
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-H
Confidence            44556666677777777777777777776542 334556666677777777777777777766554322 22222222 2


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      .+...|++++|...++++.+....+      +......+..++...|++++|...+++...... .+...+..+...+..
T Consensus       186 ~l~~~g~~~eA~~~~~~~l~~~~~~------~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p-~~~~~~~~Lg~~l~~  258 (656)
T PRK15174        186 SFLNKSRLPEDHDLARALLPFFALE------RQESAGLAVDTLCAVGKYQEAIQTGESALARGL-DGAALRRSLGLAYYQ  258 (656)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCc------chhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHH
Confidence            3666777777777777765542211      223445556677788888888888888777642 256667777888888


Q ss_pred             cCChhH----HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCC
Q 036731          175 DEQMDK----AHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLN  250 (259)
Q Consensus       175 ~~~~~~----a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  250 (259)
                      .|++++    |...+++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+..++.+.|++++
T Consensus       259 ~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~e  336 (656)
T PRK15174        259 SGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTA  336 (656)
T ss_pred             cCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            888875    788888887662 3356678888888888899999999888888764 2245566778888888899988


Q ss_pred             cchhhhc
Q 036731          251 SIPQFNR  257 (259)
Q Consensus       251 a~~~~~~  257 (259)
                      |+..|++
T Consensus       337 A~~~l~~  343 (656)
T PRK15174        337 ASDEFVQ  343 (656)
T ss_pred             HHHHHHH
Confidence            8887765

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.69  E-value=1.4e-14  Score=108.69  Aligned_cols=236  Identities=15%  Similarity=0.233  Sum_probs=177.8

Q ss_pred             ccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHH
Q 036731           12 CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNV   91 (259)
Q Consensus        12 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   91 (259)
                      .+.+..+|..+|.+.++....++|.+++++......+.+..+||.+|.+..-..    ..+++.+|....+.||..|+|+
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNa  278 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHH
Confidence            455788999999999999999999999999998888999999999997654332    2788999999999999999999


Q ss_pred             HHHHHHHcCCHHH----HHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHH-HHHHHHHHHHc----CCCC--
Q 036731           92 IMDELCKNRKMDE----ATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKN-ARELSQSLTRA----GLMP--  160 (259)
Q Consensus        92 l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~----~~~~--  160 (259)
                      ++.+..+.|+++.    |.+++.+|++.|+.|..      .+|..+|..+++.++..+ +..++.++...    .++|  
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsL------sSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~  352 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSL------SSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPIT  352 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcch------hhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCC
Confidence            9999999998765    56788889999998854      899999999999888754 44444444432    2222  


Q ss_pred             --ChhhHHHHHHHHHhcCChhHHHHHHHHHHhc----CCCCcH---HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccc
Q 036731          161 --NVVTYNITIHALCNDEQMDKAHDLFLDMEVK----GVAPNC---VIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPY  231 (259)
Q Consensus       161 --~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  231 (259)
                        |...|...+..|.+..+.+.|.++-.-+...    -+.|+.   .-|..+....++....+.....+..|.-.-.-|.
T Consensus       353 p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~  432 (625)
T KOG4422|consen  353 PTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPH  432 (625)
T ss_pred             CchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCC
Confidence              3445667777888888888887776555432    133332   2355666677777777888888888876666677


Q ss_pred             hHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          232 ASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       232 ~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ..+...++++....|.++-.-+++..
T Consensus       433 ~~~m~~~lrA~~v~~~~e~ipRiw~D  458 (625)
T KOG4422|consen  433 SQTMIHLLRALDVANRLEVIPRIWKD  458 (625)
T ss_pred             chhHHHHHHHHhhcCcchhHHHHHHH
Confidence            77888888877777777655555543

>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=99.68  E-value=1.9e-13  Score=113.67  Aligned_cols=160  Identities=13%  Similarity=0.037  Sum_probs=106.7

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHH
Q 036731           88 TFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNI  167 (259)
Q Consensus        88 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  167 (259)
                      .+..+...+...|++++|+..+++..+.  .|+     ....|..+..++...|++++|...|++..+... .+..+|..
T Consensus       333 a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~-----~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p-~~~~~~~~  404 (615)
T TIGR00990       333 ALNLRGTFKCLKGKHLEALADLSKSIEL--DPR-----VTQSYIKRASMNLELGDPDKAEEDFDKALKLNS-EDPDIYYH  404 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCC-----cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHH
Confidence            3444455555666666666666666553  222     335666777777777777777777777766532 24566777


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcc
Q 036731          168 TIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEI  247 (259)
Q Consensus       168 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  247 (259)
                      +...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|...+++..+.. +.+...+..+..++...|+
T Consensus       405 lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~  482 (615)
T TIGR00990       405 RAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNK  482 (615)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccC
Confidence            7777777777777777777777652 2345566667777777788888888887776542 2345677777777888888


Q ss_pred             cCCcchhhhc
Q 036731          248 SLNSIPQFNR  257 (259)
Q Consensus       248 ~~~a~~~~~~  257 (259)
                      +++|++.|++
T Consensus       483 ~~~A~~~~~~  492 (615)
T TIGR00990       483 FDEAIEKFDT  492 (615)
T ss_pred             HHHHHHHHHH
Confidence            8887777654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.67  E-value=4.7e-13  Score=97.77  Aligned_cols=200  Identities=11%  Similarity=0.035  Sum_probs=111.2

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+... .+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHH
Confidence            3445555666666666666666666665442 22345555556666666666666666666655432 234455555666


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND  175 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  175 (259)
                      +...|++++|.+.+++.......+.     ....+..+..++...|++++|...+++..+... .+...+..+...+...
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~  182 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQ-----PARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELYYLR  182 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhcccccc-----chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHHHHc
Confidence            6666666666666666654321111     224455555666666666666666666555421 1334555555666666


Q ss_pred             CChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 036731          176 EQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMD  224 (259)
Q Consensus       176 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (259)
                      |++++|...+++.... .+.+...+..+...+...|+.++|..+.+.+.
T Consensus       183 ~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       183 GQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             CCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            6666666666665554 23344445555555556666666666555544

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.67  E-value=1.1e-13  Score=108.70  Aligned_cols=225  Identities=8%  Similarity=0.032  Sum_probs=175.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhCCCCCchHhHH--HHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcC
Q 036731           23 IDGLCKEGFVDKAKELFLQMKDENINPNVVTYN--SLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNR  100 (259)
Q Consensus        23 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  100 (259)
                      ..+..+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|...++.+.+... -+......+...|.+.|
T Consensus       125 A~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P-~~~~al~ll~~~~~~~g  201 (398)
T PRK10747        125 AEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAP-RHPEVLRLAEQAYIRTG  201 (398)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHH
Confidence            44558899999999999999865  55554333  335678889999999999999988753 36778888999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCc-----------------------------------cchhHHHHHHHHHHHHhcCChHH
Q 036731          101 KMDEATRLLDLMIQGGVRPDAF-----------------------------------CEINIVAYGCLIDGLCKIGKLKN  145 (259)
Q Consensus       101 ~~~~a~~~~~~~~~~~~~~~~~-----------------------------------~~~~~~~~~~l~~~~~~~~~~~~  145 (259)
                      ++++|.+++..+.+.+..++..                                   .+.++.....+...+...|+.++
T Consensus       202 dw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~  281 (398)
T PRK10747        202 AWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDT  281 (398)
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHH
Confidence            9999999998888655432110                                   11244566677888889999999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          146 ARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       146 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      |..++++..+.  .|+...  .++.+....++.+++.+..+...+.. +-|...+..+...|.+.+++++|.+.|+...+
T Consensus       282 A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~  356 (398)
T PRK10747        282 AQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALK  356 (398)
T ss_pred             HHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            99999988874  344422  23344445689999999999988762 33556688889999999999999999999997


Q ss_pred             CCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          226 RNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       226 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      .  .|+...+..+..++.+.|+.++|..+|++
T Consensus       357 ~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~  386 (398)
T PRK10747        357 Q--RPDAYDYAWLADALDRLHKPEEAAAMRRD  386 (398)
T ss_pred             c--CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6  68889999999999999999999988874

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.66  E-value=3.9e-13  Score=115.01  Aligned_cols=227  Identities=10%  Similarity=-0.011  Sum_probs=178.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +...|..+..++.. ++.++|...+.+....  .|+......+...+...|++++|...|+++...  +|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            56778888877776 7888899988887765  456544444455557899999999999987654  444555667788


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      ++.+.|+.++|...+++..+..  |+     +...+..+.....+.|++++|...+++..+.  .|+...+..+..++.+
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~--P~-----~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~  621 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRG--LG-----DNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQ  621 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC--Cc-----cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHH
Confidence            8899999999999999988754  33     2234444444555669999999999999876  4567788889999999


Q ss_pred             cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchh
Q 036731          175 DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      .|++++|...+++..... +-+...+..+..++...|++++|...+++..+.. +-+...+..+..++...|++++|+..
T Consensus       622 lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~  699 (987)
T PRK09782        622 RHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHY  699 (987)
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999999998873 3456778888888999999999999999988764 33677888899999999999999988


Q ss_pred             hhc
Q 036731          255 FNR  257 (259)
Q Consensus       255 ~~~  257 (259)
                      |++
T Consensus       700 l~~  702 (987)
T PRK09782        700 ARL  702 (987)
T ss_pred             HHH
Confidence            875

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

Probab=99.63  E-value=9.6e-16  Score=115.18  Aligned_cols=224  Identities=12%  Similarity=0.054  Sum_probs=98.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhCCC-CCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHc
Q 036731           21 TIIDGLCKEGFVDKAKELFLQMKDENI-NPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKN   99 (259)
Q Consensus        21 ~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   99 (259)
                      .+...+.+.|++++|+++++....... +.+...|..+...+...++++.|.+.++++...+.. +...+..++.. ...
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            457888899999999999976654432 335556666777778899999999999999987544 56677777777 789


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCChhhHHHHHHHHHhcCCh
Q 036731          100 RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG-LMPNVVTYNITIHALCNDEQM  178 (259)
Q Consensus       100 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~  178 (259)
                      +++++|.+++....+...        +...+..++..+.+.++++++..+++.+.... .+.+...|..+...+.+.|+.
T Consensus        91 ~~~~~A~~~~~~~~~~~~--------~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~  162 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERDG--------DPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDP  162 (280)
T ss_dssp             -----------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHH
T ss_pred             cccccccccccccccccc--------ccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCH
Confidence            999999999887655432        33678888999999999999999999987543 345777888899999999999


Q ss_pred             hHHHHHHHHHHhcCCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          179 DKAHDLFLDMEVKGVAP-NCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       179 ~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ++|...+++..+.  .| |......++..+...|+.+++.++++...+.. +.+...+..+..+|...|+.++|+..|++
T Consensus       163 ~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~  239 (280)
T PF13429_consen  163 DKALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEK  239 (280)
T ss_dssp             HHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccc
Confidence            9999999999987  45 57788899999999999999999999887664 45667888999999999999999999876

>TIGR00540 hemY_coli hemY protein

Probab=99.63  E-value=1.4e-12  Score=103.06  Aligned_cols=232  Identities=10%  Similarity=0.014  Sum_probs=171.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchH--hHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQMKDENINPNVV--TYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDEL   96 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   96 (259)
                      +-....++.+.|+++.|.+.+.+..+.  .|+..  ........+...|+++.|...++.+.+.... +......+...+
T Consensus       121 ~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~-~~~~l~ll~~~~  197 (409)
T TIGR00540       121 LIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPR-HKEVLKLAEEAY  197 (409)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            334456677889999999999888765  24432  3333467778889999999999998887533 566778888889


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCCc------------------------------cc-----hhHHHHHHHHHHHHhcC
Q 036731           97 CKNRKMDEATRLLDLMIQGGVRPDAF------------------------------CE-----INIVAYGCLIDGLCKIG  141 (259)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~------------------------------~~-----~~~~~~~~l~~~~~~~~  141 (259)
                      ...|+++.|.+.+..+.+.+..+...                              ..     .+...+..+...+...|
T Consensus       198 ~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g  277 (409)
T TIGR00540       198 IRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCD  277 (409)
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCC
Confidence            99999998888888888765432211                              11     26678888888899999


Q ss_pred             ChHHHHHHHHHHHHcCCCCChhh---HHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc-H--HHHHHHHHHHHhcCCHHH
Q 036731          142 KLKNARELSQSLTRAGLMPNVVT---YNITIHALCNDEQMDKAHDLFLDMEVKGVAPN-C--VIFTTLMPSFIRKNETSK  215 (259)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~-~--~~~~~l~~~~~~~~~~~~  215 (259)
                      +.++|.+++++..+..  ||...   ...........++.+.+.+.++...+.  .|+ +  ....++...+.+.|++++
T Consensus       278 ~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~  353 (409)
T TIGR00540       278 DHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIE  353 (409)
T ss_pred             ChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHH
Confidence            9999999999998863  34332   111222223457778888888887765  343 3  556688899999999999


Q ss_pred             HHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          216 VIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       216 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      |.+.|+........|+...+..+...+.+.|+.++|.++|++
T Consensus       354 A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~  395 (409)
T TIGR00540       354 AADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQD  395 (409)
T ss_pred             HHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999644434478888899999999999999999998875

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.

>PF13041 PPR_2: PPR repeat family

Probab=99.62  E-value=1.7e-15  Score=82.14  Aligned_cols=50  Identities=50%  Similarity=0.923  Sum_probs=43.0

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhh
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCY   63 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~   63 (259)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|++||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            78888888888888888888888888888888888888888888888764

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

Probab=99.61  E-value=7.3e-13  Score=96.07  Aligned_cols=220  Identities=14%  Similarity=0.132  Sum_probs=168.5

Q ss_pred             cCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc---hhhHHHHHHHHHHcCCHHHH
Q 036731           29 EGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD---VVTFNVIMDELCKNRKMDEA  105 (259)
Q Consensus        29 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a  105 (259)
                      +.+.++|.++|-+|.+.. +.+..+.-+|.+.|.+.|..+.|+++.+.+.++.--+.   ....-.|..-|...|-++.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            567899999999998752 33556667888899999999999999998887621111   12334566778889999999


Q ss_pred             HHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh----hhHHHHHHHHHhcCChhHH
Q 036731          106 TRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNV----VTYNITIHALCNDEQMDKA  181 (259)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a  181 (259)
                      +.+|..+.+.+...       ......|+..|....+|++|.++-+++.+.+..+..    ..|..+...+....+.+.|
T Consensus       127 E~~f~~L~de~efa-------~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A  199 (389)
T COG2956         127 EDIFNQLVDEGEFA-------EGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRA  199 (389)
T ss_pred             HHHHHHHhcchhhh-------HHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHH
Confidence            99999988755443       368889999999999999999999999887654432    2456666666777888999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          182 HDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       182 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ..++.+..+.+ +-.+..--.+.+.+...|+++.|.+.++...+.+..--+.+...+..+|...|+.++.+..+.+
T Consensus       200 ~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~  274 (389)
T COG2956         200 RELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRR  274 (389)
T ss_pred             HHHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            99999888763 2223333455678888999999999999999888777788889999999999998887766543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.60  E-value=2.2e-12  Score=94.23  Aligned_cols=199  Identities=11%  Similarity=0.019  Sum_probs=163.9

Q ss_pred             CchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHH
Q 036731           49 PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIV  128 (259)
Q Consensus        49 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  128 (259)
                      .....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+..  |.     +..
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--~~-----~~~  100 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN--PN-----NGD  100 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CC-----CHH
Confidence            345678888899999999999999999998764 3356778889999999999999999999988754  22     347


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLM-PNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      .+..+...+...|++++|...+++....... .....+..+...+...|++++|...+.+..... +.+...+..+...+
T Consensus       101 ~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  179 (234)
T TIGR02521       101 VLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELY  179 (234)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHH
Confidence            8888999999999999999999999875322 234567778888999999999999999988763 33566788889999


Q ss_pred             HhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          208 IRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       208 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ...|++++|...+++..+. .+.+...+..+...+...|+.++|..+.+.
T Consensus       180 ~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  228 (234)
T TIGR02521       180 YLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQ  228 (234)
T ss_pred             HHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            9999999999999998876 344667777888889999999999887654

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.

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

Probab=99.58  E-value=4.7e-13  Score=105.09  Aligned_cols=225  Identities=14%  Similarity=0.127  Sum_probs=160.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc-hhhHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD-VVTFNVIMD   94 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~   94 (259)
                      ..|-.|...|...+.+++|...|.+....  .| ....|..+...|..+|.++-|+..|++..+.  .|+ ...|+.|..
T Consensus       253 dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~Nlan  328 (966)
T KOG4626|consen  253 DAYINLGNVYKEARIFDRAVSCYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLAN  328 (966)
T ss_pred             HHHhhHHHHHHHHhcchHHHHHHHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHH
Confidence            45666666677777777777777666543  33 3455666666677777777777777777665  343 556778888


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHH
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP-NVVTYNITIHALC  173 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~  173 (259)
                      ++-..|+..+|.+.+.+.....  |+     .....+.|..+|...|.+++|..+|....+-  .| -...++.|...|-
T Consensus       329 ALkd~G~V~ea~~cYnkaL~l~--p~-----hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~k  399 (966)
T KOG4626|consen  329 ALKDKGSVTEAVDCYNKALRLC--PN-----HADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYK  399 (966)
T ss_pred             HHHhccchHHHHHHHHHHHHhC--Cc-----cHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHH
Confidence            8888888888888887776542  32     3467777888888888888888888777664  22 2446777888888


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCcH-HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcc
Q 036731          174 NDEQMDKAHDLFLDMEVKGVAPNC-VIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSI  252 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  252 (259)
                      .+|++++|...+++....  .|+. ..|+.+...|-..|+.+.|.+.+.+.+..+. .-.+.++-|...|..+|+..+|+
T Consensus       400 qqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nP-t~AeAhsNLasi~kDsGni~~AI  476 (966)
T KOG4626|consen  400 QQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINP-TFAEAHSNLASIYKDSGNIPEAI  476 (966)
T ss_pred             hcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCc-HHHHHHhhHHHHhhccCCcHHHH
Confidence            888888888888887754  5654 5688888888888888888888888776542 24567777888888888888888


Q ss_pred             hhhhc
Q 036731          253 PQFNR  257 (259)
Q Consensus       253 ~~~~~  257 (259)
                      ..|++
T Consensus       477 ~sY~~  481 (966)
T KOG4626|consen  477 QSYRT  481 (966)
T ss_pred             HHHHH
Confidence            77753

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.58  E-value=6.1e-12  Score=107.86  Aligned_cols=229  Identities=9%  Similarity=-0.041  Sum_probs=176.4

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      |+......+...+.+.|++++|...|+++...  +|+...+..+...+.+.|++++|...++...+.. +.+...+..+.
T Consensus       507 Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La  583 (987)
T PRK09782        507 PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLH  583 (987)
T ss_pred             CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHH
Confidence            55433333445556899999999999998654  4555667777888899999999999999998774 22333333444


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC  173 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (259)
                      ......|++++|...+++..+..  |      +...+..+..++.+.|++++|...+++...... .+...+..+..++.
T Consensus       584 ~~l~~~Gr~~eAl~~~~~AL~l~--P------~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~P-d~~~a~~nLG~aL~  654 (987)
T PRK09782        584 AQRYIPGQPELALNDLTRSLNIA--P------SANAYVARATIYRQRHNVPAAVSDLRAALELEP-NNSNYQAALGYALW  654 (987)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC--C------CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            45556699999999999998753  3      237899999999999999999999999998753 25667788888999


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcch
Q 036731          174 NDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIP  253 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  253 (259)
                      ..|++++|...+++..+.. +-+...+..+..++...|++++|...+++..+... -+..+.........+..+++.|.+
T Consensus       655 ~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P-~~a~i~~~~g~~~~~~~~~~~a~~  732 (987)
T PRK09782        655 DSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDDID-NQALITPLTPEQNQQRFNFRRLHE  732 (987)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCchhhhhhhHHHHHHHHHHHHHH
Confidence            9999999999999998863 34667888999999999999999999999987642 233455556666666666666666


Q ss_pred             hhh
Q 036731          254 QFN  256 (259)
Q Consensus       254 ~~~  256 (259)
                      .++
T Consensus       733 ~~~  735 (987)
T PRK09782        733 EVG  735 (987)
T ss_pred             HHH
Confidence            544

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.57  E-value=3.1e-12  Score=113.23  Aligned_cols=230  Identities=13%  Similarity=0.042  Sum_probs=165.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK   98 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   98 (259)
                      +..+...+...|++++|.+.|++..+.. +-+...+..+...|.+.|++++|...++++.+.... +...+..+...+..
T Consensus       464 ~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~  541 (1157)
T PRK11447        464 LAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPN-DPEQVYAYGLYLSG  541 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHh
Confidence            4456677788899999999999988763 335667778888899999999999999988765322 33333333333344


Q ss_pred             cCCHHHHHHHHHHHHhCC--------------------------------------CCCCCccchhHHHHHHHHHHHHhc
Q 036731           99 NRKMDEATRLLDLMIQGG--------------------------------------VRPDAFCEINIVAYGCLIDGLCKI  140 (259)
Q Consensus        99 ~~~~~~a~~~~~~~~~~~--------------------------------------~~~~~~~~~~~~~~~~l~~~~~~~  140 (259)
                      .++.++|...++.+....                                      ..|+     +...+..+...+.+.
T Consensus       542 ~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~-----~~~~~~~La~~~~~~  616 (1157)
T PRK11447        542 SDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPP-----STRIDLTLADWAQQR  616 (1157)
T ss_pred             CCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCC-----CchHHHHHHHHHHHc
Confidence            445455444443321100                                      1222     346677888999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHH
Q 036731          141 GKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELL  220 (259)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  220 (259)
                      |++++|...|++..+... .+...+..+...+...|++++|.+.++.+.+.. +.+...+..+..++...|++++|.+++
T Consensus       617 g~~~~A~~~y~~al~~~P-~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~  694 (1157)
T PRK11447        617 GDYAAARAAYQRVLTREP-GNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTF  694 (1157)
T ss_pred             CCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHH
Confidence            999999999999988743 367788889999999999999999999887652 234556677788888999999999999


Q ss_pred             HHHhhCCC--cc---chHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          221 RSMDKRNV--MP---YASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       221 ~~~~~~~~--~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      +++.....  .|   +...+..+...+...|+.++|+..|++
T Consensus       695 ~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~  736 (1157)
T PRK11447        695 NRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKD  736 (1157)
T ss_pred             HHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99876532  22   234666778889999999999998875

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.57  E-value=6.9e-12  Score=111.06  Aligned_cols=233  Identities=12%  Similarity=-0.012  Sum_probs=159.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHH-------------------------------------
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSL-------------------------------------   57 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------------------------------------   57 (259)
                      +...+..+...+...|++++|++.|++..+.. +.+...+..+                                     
T Consensus       384 ~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~  462 (1157)
T PRK11447        384 DSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQND  462 (1157)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhh
Confidence            56677788889999999999999999988652 2223333222                                     


Q ss_pred             -----HHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHH
Q 036731           58 -----IHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC  132 (259)
Q Consensus        58 -----i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  132 (259)
                           ...+...|++++|++.+++..+.... +...+..+...|.+.|++++|...++++.+..  |+     +...+..
T Consensus       463 ~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~--P~-----~~~~~~a  534 (1157)
T PRK11447        463 RLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQK--PN-----DPEQVYA  534 (1157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CC-----CHHHHHH
Confidence                 23344578888888888888876432 56677778888999999999999998887642  33     1222322


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHc---------------------------------------CCCCChhhHHHHHHHHH
Q 036731          133 LIDGLCKIGKLKNARELSQSLTRA---------------------------------------GLMPNVVTYNITIHALC  173 (259)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~~~~~---------------------------------------~~~~~~~~~~~li~~~~  173 (259)
                      +...+...++.++|...++.+...                                       ..+.+...+..+...+.
T Consensus       535 ~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~  614 (1157)
T PRK11447        535 YGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQ  614 (1157)
T ss_pred             HHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHH
Confidence            223333344444444333322100                                       11334556667778888


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcch
Q 036731          174 NDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIP  253 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  253 (259)
                      ..|++++|...|++..+.. +.+...+..+...+...|++++|.+.++.+.+.. +.+..+...+..++...|++++|.+
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            8899999999999888763 3457788888889999999999999999877653 2345566777888888999999988


Q ss_pred             hhhcc
Q 036731          254 QFNRQ  258 (259)
Q Consensus       254 ~~~~~  258 (259)
                      +|+++
T Consensus       693 ~~~~a  697 (1157)
T PRK11447        693 TFNRL  697 (1157)
T ss_pred             HHHHH
Confidence            88764

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

Probab=99.56  E-value=2.3e-12  Score=93.57  Aligned_cols=220  Identities=14%  Similarity=0.118  Sum_probs=143.1

Q ss_pred             CCCcccccccccCCHHHH---HHHHHHHHhcCChHHHHHHHHHHhhCC-CCCc--hHhHHHHHHHHhhcCChhHHHHHHH
Q 036731            2 ANGNREFGVVCKPNTVTY---NTIIDGLCKEGFVDKAKELFLQMKDEN-INPN--VVTYNSLIHGFCYANDGNEAEYLFI   75 (259)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~---~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~li~~~~~~~~~~~a~~~~~   75 (259)
                      |.|.+.|-...+-|+.||   -+|.+.|.+.|.+++|+++.+.+.++. .+.+  ......|..-|...|-+|.|..+|.
T Consensus        52 dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~  131 (389)
T COG2956          52 DKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFN  131 (389)
T ss_pred             chHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            345666666666665555   467788999999999999999998761 1111  2234556677888999999999999


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 036731           76 EMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTR  155 (259)
Q Consensus        76 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  155 (259)
                      .+.+.+. .-....-.|+..|-...+|++|+++-+++.+.+..+...  .=...|.-+...+....+.+.|...+++..+
T Consensus       132 ~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~--eIAqfyCELAq~~~~~~~~d~A~~~l~kAlq  208 (389)
T COG2956         132 QLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRV--EIAQFYCELAQQALASSDVDRARELLKKALQ  208 (389)
T ss_pred             HHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchh--HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHh
Confidence            9987642 245567778899999999999999988888766554321  1123444555555556666666666666655


Q ss_pred             cCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          156 AGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       156 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      .+.+ .+..-..+.+.....|+++.|.+.|+...+.+...-..+...|..+|.+.|+.++....+.++.+
T Consensus       209 a~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         209 ADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME  277 (389)
T ss_pred             hCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4322 23333344455666666666666666666664433445566666666666666666666555543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.55  E-value=6.3e-12  Score=94.77  Aligned_cols=229  Identities=14%  Similarity=0.215  Sum_probs=181.3

Q ss_pred             ccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhH----HHHHHHHHHHcCCCCchh
Q 036731           12 CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNE----AEYLFIEMMDRGLQSDVV   87 (259)
Q Consensus        12 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~   87 (259)
                      .+.+..+||.+|.+-.-...    .+++.+|....+.||..|+|.++.+..+.|+++.    |++++.+|++.|+.|...
T Consensus       238 ~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLs  313 (625)
T KOG4422|consen  238 GKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLS  313 (625)
T ss_pred             heeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchh
Confidence            45688899999987654333    7899999999999999999999999999998775    677888999999999999


Q ss_pred             hHHHHHHHHHHcCCHHH-HHHHHHHHH----hCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC----C
Q 036731           88 TFNVIMDELCKNRKMDE-ATRLLDLMI----QGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG----L  158 (259)
Q Consensus        88 ~~~~l~~~~~~~~~~~~-a~~~~~~~~----~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~  158 (259)
                      +|..++..+.+.++..+ +..++.++.    ...++|.  .+.|...|...+..|.+..+.+.|.++..-+....    +
T Consensus       314 Syh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~--~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~i  391 (625)
T KOG4422|consen  314 SYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPI--TPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFI  391 (625)
T ss_pred             hHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCC--CCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhc
Confidence            99999999999888754 444444443    2223332  13366788899999999999999999887665321    2


Q ss_pred             CCC---hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHH
Q 036731          159 MPN---VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASIL  235 (259)
Q Consensus       159 ~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  235 (259)
                      .|+   ..-|..+....+.....+....+|+.|+-.-+-|+..+...++++....|.++-.-+++..+...|.......-
T Consensus       392 g~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~  471 (625)
T KOG4422|consen  392 GPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLR  471 (625)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHH
Confidence            333   23466777888888999999999999998888899999999999999999999999999999988877666666


Q ss_pred             HHHHHHHHHhc
Q 036731          236 SIIVDLLVKNE  246 (259)
Q Consensus       236 ~~l~~~~~~~g  246 (259)
                      .-++..+++..
T Consensus       472 eeil~~L~~~k  482 (625)
T KOG4422|consen  472 EEILMLLARDK  482 (625)
T ss_pred             HHHHHHHhcCC
Confidence            66666555544

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

Probab=99.55  E-value=1.1e-12  Score=103.41  Aligned_cols=228  Identities=13%  Similarity=0.057  Sum_probs=176.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCC---------------------------------CCCchHhHHHHHHHHhh
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDEN---------------------------------INPNVVTYNSLIHGFCY   63 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---------------------------------~~~~~~~~~~li~~~~~   63 (259)
                      .+...+..+|...+++++|.++|+.+++..                                 -+-.+.+|..+.++|.-
T Consensus       354 wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSL  433 (638)
T KOG1126|consen  354 WVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFSL  433 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhhh
Confidence            345567788999999999999998876430                                 11245667777788888


Q ss_pred             cCChhHHHHHHHHHHHcCCCC-chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC
Q 036731           64 ANDGNEAEYLFIEMMDRGLQS-DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK  142 (259)
Q Consensus        64 ~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  142 (259)
                      +++.+.|++.|++..+.  .| ...+|+.+..-+.....+|.|...|+.....  .|.     +-.+|.-+...|.+.++
T Consensus       434 Qkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~--~~r-----hYnAwYGlG~vy~Kqek  504 (638)
T KOG1126|consen  434 QKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV--DPR-----HYNAWYGLGTVYLKQEK  504 (638)
T ss_pred             hhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC--Cch-----hhHHHHhhhhheeccch
Confidence            88888888888888875  34 5678888888888888888888888877654  232     34677778888999999


Q ss_pred             hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 036731          143 LKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRS  222 (259)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (259)
                      ++.|+-.|+...+.+.. +.+....+...+.+.|+.++|++++++....+ +.|+..--.-...+...+++++|...+++
T Consensus       505 ~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~~~~il~~~~~~~eal~~LEe  582 (638)
T KOG1126|consen  505 LEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYHRASILFSLGRYVEALQELEE  582 (638)
T ss_pred             hhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHHHHHHHHhhcchHHHHHHHHH
Confidence            99999999999887543 66677778888899999999999999988764 23444444456667778999999999999


Q ss_pred             HhhCCCccchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          223 MDKRNVMPYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       223 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                      +.+. ++-....+..+...|.+.|+.+.|+.-|.
T Consensus       583 Lk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~  615 (638)
T KOG1126|consen  583 LKEL-VPQESSVFALLGKIYKRLGNTDLALLHFS  615 (638)
T ss_pred             HHHh-CcchHHHHHHHHHHHHHHccchHHHHhhH
Confidence            9876 23356677888899999999998887653

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

Probab=99.54  E-value=5e-12  Score=95.98  Aligned_cols=222  Identities=9%  Similarity=-0.004  Sum_probs=164.9

Q ss_pred             HHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCC-----------------------
Q 036731           26 LCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGL-----------------------   82 (259)
Q Consensus        26 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-----------------------   82 (259)
                      +....+.+++.+=.......|++-+...-+....+.....|+++|+.+|+++.+..+                       
T Consensus       237 ~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs  316 (559)
T KOG1155|consen  237 YQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLS  316 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHH
Confidence            333344555555555555555554444444444455556666666666666665421                       


Q ss_pred             ----------CCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHH
Q 036731           83 ----------QSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQS  152 (259)
Q Consensus        83 ----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  152 (259)
                                +-.+.|+.++.+-|+-.++.++|...|++..+.+..       ...+|+.+..-|....+...|..-++.
T Consensus       317 ~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-------~~~aWTLmGHEyvEmKNt~AAi~sYRr  389 (559)
T KOG1155|consen  317 YLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-------YLSAWTLMGHEYVEMKNTHAAIESYRR  389 (559)
T ss_pred             HHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-------hhHHHHHhhHHHHHhcccHHHHHHHHH
Confidence                      112345666666677778889999999998886544       457899999999999999999999999


Q ss_pred             HHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccch
Q 036731          153 LTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYA  232 (259)
Q Consensus       153 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  232 (259)
                      ..+-+. .|-..|-.|.++|...+...-|+-.|++..... +-|...|.+|..+|.+.++.++|.+.|.+....|- .+.
T Consensus       390 Avdi~p-~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~  466 (559)
T KOG1155|consen  390 AVDINP-RDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEG  466 (559)
T ss_pred             HHhcCc-hhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cch
Confidence            888753 378889999999999999999999999988762 44778899999999999999999999999887763 366


Q ss_pred             HHHHHHHHHHHHhcccCCcchhhhc
Q 036731          233 SILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       233 ~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ..+..+.+.|.+.++.++|...|.+
T Consensus       467 ~~l~~LakLye~l~d~~eAa~~yek  491 (559)
T KOG1155|consen  467 SALVRLAKLYEELKDLNEAAQYYEK  491 (559)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            7888899999999999998887764

>PRK12370 invasion protein regulator; Provisional

Probab=99.53  E-value=2.9e-11  Score=99.20  Aligned_cols=228  Identities=11%  Similarity=0.045  Sum_probs=162.5

Q ss_pred             CCHHHHHHHHHHHHh-----cCChHHHHHHHHHHhhCCCCC-chHhHHHHHHHHh---------hcCChhHHHHHHHHHH
Q 036731           14 PNTVTYNTIIDGLCK-----EGFVDKAKELFLQMKDENINP-NVVTYNSLIHGFC---------YANDGNEAEYLFIEMM   78 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~---------~~~~~~~a~~~~~~~~   78 (259)
                      .+...|...+.+-..     .+++++|..+|++..+.  .| +...|..+..++.         ..+++++|...+++..
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            456667677666422     23467899999998876  34 3455555554443         2345789999999998


Q ss_pred             HcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 036731           79 DRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGL  158 (259)
Q Consensus        79 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  158 (259)
                      +.... +...+..+...+...|++++|...|++..+.+  |+     +...+..+..++...|++++|...+++..+...
T Consensus       332 ~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~--P~-----~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P  403 (553)
T PRK12370        332 ELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS--PI-----SADIKYYYGWNLFMAGQLEEALQTINECLKLDP  403 (553)
T ss_pred             hcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            87433 67788888888999999999999999998764  44     457888899999999999999999999988743


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHH
Q 036731          159 MPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAP-NCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSI  237 (259)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  237 (259)
                      . +...+..++..+...|++++|...+++..... .| +...+..+..++...|++++|...+.++.... +.+......
T Consensus       404 ~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~  480 (553)
T PRK12370        404 T-RAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNL  480 (553)
T ss_pred             C-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHH
Confidence            3 22233344555667899999999999987653 24 44556777888889999999999998876552 223334455


Q ss_pred             HHHHHHHhcccCCcchhhh
Q 036731          238 IVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       238 l~~~~~~~g~~~~a~~~~~  256 (259)
                      +...|...|+  +|...++
T Consensus       481 l~~~~~~~g~--~a~~~l~  497 (553)
T PRK12370        481 LYAEYCQNSE--RALPTIR  497 (553)
T ss_pred             HHHHHhccHH--HHHHHHH
Confidence            5556666664  5555444

>PF13041 PPR_2: PPR repeat family

Probab=99.53  E-value=2.9e-14  Score=77.22  Aligned_cols=50  Identities=50%  Similarity=0.903  Sum_probs=48.5

Q ss_pred             CchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH
Q 036731           49 PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK   98 (259)
Q Consensus        49 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   98 (259)
                      ||..+||.+|.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            79999999999999999999999999999999999999999999999874

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

Probab=99.53  E-value=4.2e-13  Score=108.90  Aligned_cols=225  Identities=18%  Similarity=0.202  Sum_probs=163.9

Q ss_pred             cccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhh
Q 036731            9 GVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVT   88 (259)
Q Consensus         9 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   88 (259)
                      ..|+.|+..||..+|.-|+..|+.+.|- +|.-|.-...+.+...|+.++.+...+++.+.+.           .|...|
T Consensus        18 ~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDt   85 (1088)
T KOG4318|consen   18 ISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLADT   85 (1088)
T ss_pred             HhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchhH
Confidence            4689999999999999999999999998 9999988878888889999999988888888776           678889


Q ss_pred             HHHHHHHHHHcCCHHH---HHHHHHHH----HhCCCCCCCc-----------cch----------hHHHHHHHHHHHHhc
Q 036731           89 FNVIMDELCKNRKMDE---ATRLLDLM----IQGGVRPDAF-----------CEI----------NIVAYGCLIDGLCKI  140 (259)
Q Consensus        89 ~~~l~~~~~~~~~~~~---a~~~~~~~----~~~~~~~~~~-----------~~~----------~~~~~~~l~~~~~~~  140 (259)
                      |..|..+|...||+..   ..+-+..+    ...|+.....           ..|          ....|..++......
T Consensus        86 yt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~  165 (1088)
T KOG4318|consen   86 YTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKV  165 (1088)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            9999999999998654   22212222    1222211100           011          111222222222110


Q ss_pred             ------C-----------ChHHHHHHHHHHHHcCC-CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHH
Q 036731          141 ------G-----------KLKNARELSQSLTRAGL-MPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTT  202 (259)
Q Consensus       141 ------~-----------~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  202 (259)
                            +           .+.-..++.... +... .|++.+|..++.+-...|+.+.|..++.+|++.|++.+.+.|..
T Consensus       166 Pvsa~~~p~~vfLrqnv~~ntpvekLl~~c-ksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwp  244 (1088)
T KOG4318|consen  166 PVSAWNAPFQVFLRQNVVDNTPVEKLLNMC-KSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWP  244 (1088)
T ss_pred             CcccccchHHHHHHHhccCCchHHHHHHHH-HHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchh
Confidence                  0           011111111111 2222 48999999999999999999999999999999999999999888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccC
Q 036731          203 LMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISL  249 (259)
Q Consensus       203 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  249 (259)
                      |+-+   .+...-+..+++-|.+.|+.|++.|+...+..+.++|...
T Consensus       245 Ll~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~  288 (1088)
T KOG4318|consen  245 LLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTK  288 (1088)
T ss_pred             hhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhh
Confidence            8876   7888889999999999999999999999888888766643

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

Probab=99.53  E-value=1.1e-12  Score=103.17  Aligned_cols=226  Identities=14%  Similarity=0.129  Sum_probs=174.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc-hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN-VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      .+|+.|...+-..|+...|++-|++..+.  .|+ ...|-.|...|...+.+++|...|.+..... +.....+..+.-.
T Consensus       219 iawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~i  295 (966)
T KOG4626|consen  219 IAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLACI  295 (966)
T ss_pred             eeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceEEE
Confidence            45777777777788888888888887754  343 5677778888888888888888888777652 2245667777777


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND  175 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  175 (259)
                      |...|+++-|+..+++..+.  .|.     -...|+.|..++-..|++.+|.+.|.+...... ......+.|..++...
T Consensus       296 YyeqG~ldlAI~~Ykral~~--~P~-----F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p-~hadam~NLgni~~E~  367 (966)
T KOG4626|consen  296 YYEQGLLDLAIDTYKRALEL--QPN-----FPDAYNNLANALKDKGSVTEAVDCYNKALRLCP-NHADAMNNLGNIYREQ  367 (966)
T ss_pred             EeccccHHHHHHHHHHHHhc--CCC-----chHHHhHHHHHHHhccchHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHh
Confidence            88888888888888888764  333     347899999999999999999999988887642 2455778888899999


Q ss_pred             CChhHHHHHHHHHHhcCCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCcc-chHHHHHHHHHHHHhcccCCcch
Q 036731          176 EQMDKAHDLFLDMEVKGVAPN-CVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP-YASILSIIVDLLVKNEISLNSIP  253 (259)
Q Consensus       176 ~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~  253 (259)
                      |.++.|..+|....+-  .|. ...++.|...|-+.|++++|...+++.+..  .| -...++-+...|...|+.+.|+.
T Consensus       368 ~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~~A~q  443 (966)
T KOG4626|consen  368 GKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVSAAIQ  443 (966)
T ss_pred             ccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHHHHHH
Confidence            9999999999888765  444 356888888899999999999999988864  44 35678888888999999988888


Q ss_pred             hhhc
Q 036731          254 QFNR  257 (259)
Q Consensus       254 ~~~~  257 (259)
                      .|.+
T Consensus       444 ~y~r  447 (966)
T KOG4626|consen  444 CYTR  447 (966)
T ss_pred             HHHH
Confidence            7754

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

Probab=99.52  E-value=2.1e-12  Score=94.12  Aligned_cols=226  Identities=13%  Similarity=0.076  Sum_probs=180.3

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHc
Q 036731           20 NTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKN   99 (259)
Q Consensus        20 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   99 (259)
                      +.+..+|.+.|.+.+|.+-++...++  .|-+.||-.|-+.|.+-.+++.|+.++.+-.+. ++-+.....-..+.+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            45778888999999999999888776  567888888999999999999999999888776 333444445567788888


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChh
Q 036731          100 RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMD  179 (259)
Q Consensus       100 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  179 (259)
                      ++.++|.++++...+..  |.     ++....++...|.-.++++.|+.+|+++...|+. +...|+.+.-+|.-.++++
T Consensus       304 ~~~~~a~~lYk~vlk~~--~~-----nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D  375 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH--PI-----NVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQID  375 (478)
T ss_pred             HhHHHHHHHHHHHHhcC--Cc-----cceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchh
Confidence            89999999998887653  22     5577777888888889999999999999998876 7888888888888899999


Q ss_pred             HHHHHHHHHHhcCCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          180 KAHDLFLDMEVKGVAPN--CVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       180 ~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      -++.-|.+....--.|+  ..+|-.+....+..|++..|.+.|+-.+..+ .-..+.++.+.-.-.+.|+.++|..+++.
T Consensus       376 ~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~  454 (478)
T KOG1129|consen  376 LVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNA  454 (478)
T ss_pred             hhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHH
Confidence            99988888876543344  3567777777888899999999998877654 33667888888888899999988887764

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

Probab=99.50  E-value=1.6e-10  Score=86.33  Aligned_cols=233  Identities=11%  Similarity=0.032  Sum_probs=165.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDEL   96 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   96 (259)
                      ..|..-..+.-+.|+.+.+-.++.+.-+.--.++....-+..+.....|+++.|..-.+++.+.+.. ++.......++|
T Consensus       119 l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y  197 (400)
T COG3071         119 LAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMTPR-HPEVLRLALRAY  197 (400)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhCcC-ChHHHHHHHHHH
Confidence            3455555666777888888888877766533445555556666777778888888888877776533 566777788888


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCCc-----------------------------------cchhHHHHHHHHHHHHhcC
Q 036731           97 CKNRKMDEATRLLDLMIQGGVRPDAF-----------------------------------CEINIVAYGCLIDGLCKIG  141 (259)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~-----------------------------------~~~~~~~~~~l~~~~~~~~  141 (259)
                      .+.|++.....++..+.+.+.-.+..                                   ...++..-.+++.-+.+.|
T Consensus       198 ~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~  277 (400)
T COG3071         198 IRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLG  277 (400)
T ss_pred             HHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcC
Confidence            88888888888888887776554432                                   2234456666677777777


Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Q 036731          142 KLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLR  221 (259)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  221 (259)
                      +.++|.++.++..+.+..|+    -...-.+.+-++.+.-++..+..... .+-++..+..|...|.+.+.|.+|.+.|+
T Consensus       278 ~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~~~le  352 (400)
T COG3071         278 DHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQ-HPEDPLLLSTLGRLALKNKLWGKASEALE  352 (400)
T ss_pred             ChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhHHHHHHHHHH
Confidence            77777777777777655544    11222344556666666665554443 23345788899999999999999999999


Q ss_pred             HHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          222 SMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       222 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ...+.  .|+..+|..+.+++.+.|+..+|..++++
T Consensus       353 aAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e  386 (400)
T COG3071         353 AALKL--RPSASDYAELADALDQLGEPEEAEQVRRE  386 (400)
T ss_pred             HHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHH
Confidence            88766  78999999999999999999988877653

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

Probab=99.49  E-value=5.3e-11  Score=90.56  Aligned_cols=234  Identities=8%  Similarity=0.028  Sum_probs=181.5

Q ss_pred             cccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCC-C-CchHhHHHHH------------------------------
Q 036731           11 VCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENI-N-PNVVTYNSLI------------------------------   58 (259)
Q Consensus        11 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~-~~~~~~~~li------------------------------   58 (259)
                      |..-+...-+....+.-...+++.|+.+|+++.++.. . -|..+|..++                              
T Consensus       257 gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETCCiI  336 (559)
T KOG1155|consen  257 GFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETCCII  336 (559)
T ss_pred             cCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCccceeee
Confidence            3333333333344445567899999999999987621 1 1455554443                              


Q ss_pred             -HHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHH
Q 036731           59 -HGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGL  137 (259)
Q Consensus        59 -~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  137 (259)
                       +.|.-.++.++|...|++..+.+.. ....|+.+.+-|....+...|.+-+++..+..  |.     |-..|-.+.++|
T Consensus       337 aNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~--p~-----DyRAWYGLGQaY  408 (559)
T KOG1155|consen  337 ANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN--PR-----DYRAWYGLGQAY  408 (559)
T ss_pred             hhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC--ch-----hHHHHhhhhHHH
Confidence             4456667899999999999987533 56789999999999999999999999998753  33     779999999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 036731          138 CKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVI  217 (259)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  217 (259)
                      .-.+.+.-|+-.|++..... +-|...|.+|..+|.+.++.++|...|......| ..+...+..|.+.+-+.++.++|.
T Consensus       409 eim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa  486 (559)
T KOG1155|consen  409 EIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAA  486 (559)
T ss_pred             HHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHH
Confidence            99999999999999998864 3488999999999999999999999999998876 336688999999999999999999


Q ss_pred             HHHHHHhh----CCC-cc-chHHHHHHHHHHHHhcccCCcchh
Q 036731          218 ELLRSMDK----RNV-MP-YASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       218 ~~~~~~~~----~~~-~~-~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      ..+..-++    .|. .| .......|...+.+.+++++|..+
T Consensus       487 ~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Y  529 (559)
T KOG1155|consen  487 QYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYY  529 (559)
T ss_pred             HHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHH
Confidence            99887654    232 22 233344466777888888887654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.48  E-value=1.7e-10  Score=98.13  Aligned_cols=234  Identities=10%  Similarity=0.041  Sum_probs=165.5

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      .+...+..+...+.+.|++++|.++|++..+.. +.+...+..+...+...|++++|+..++++.+.. +.+.. +..+.
T Consensus        47 ~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la  123 (765)
T PRK10049         47 LPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALA  123 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHH
Confidence            355568889999999999999999999988762 4456677788888999999999999999998773 33455 88888


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHH------------------------
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNAREL------------------------  149 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~------------------------  149 (259)
                      .++...|+.++|+..++++.+.  .|+     +...+..+..++...+..+.|+..                        
T Consensus       124 ~~l~~~g~~~~Al~~l~~al~~--~P~-----~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r  196 (765)
T PRK10049        124 YVYKRAGRHWDELRAMTQALPR--APQ-----TQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVR  196 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh--CCC-----CHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999875  343     335555566666666665544433                        


Q ss_pred             ----------------------HHHHHHc-CCCCChh-hHH----HHHHHHHhcCChhHHHHHHHHHHhcCCC-CcHHHH
Q 036731          150 ----------------------SQSLTRA-GLMPNVV-TYN----ITIHALCNDEQMDKAHDLFLDMEVKGVA-PNCVIF  200 (259)
Q Consensus       150 ----------------------~~~~~~~-~~~~~~~-~~~----~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~  200 (259)
                                            ++.+.+. ...|+.. .+.    ..+.++...|++++|...|+.+.+.+-. |+. ..
T Consensus       197 ~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~  275 (765)
T PRK10049        197 LSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQ  275 (765)
T ss_pred             hhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HH
Confidence                                  3343322 1112211 111    1133456778999999999999877522 322 22


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCcc---chHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          201 TTLMPSFIRKNETSKVIELLRSMDKRNVMP---YASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       201 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      ..+..++...|++++|...++++.+.....   .......+..++...|++++|+..++++
T Consensus       276 ~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~  336 (765)
T PRK10049        276 RWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHT  336 (765)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            235678889999999999999987643211   1345666777889999999999887754

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.47  E-value=4.9e-11  Score=94.41  Aligned_cols=240  Identities=13%  Similarity=0.025  Sum_probs=174.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhC-----CC-CCchH-hHHHHHHHHhhcCChhHHHHHHHHHHHc-----CC--
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDE-----NI-NPNVV-TYNSLIHGFCYANDGNEAEYLFIEMMDR-----GL--   82 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~--   82 (259)
                      .+...+...|...|+++.|+.+++...+.     |. .|... ..+.+...|...+++++|..+|+++...     |-  
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            45555899999999999999999988654     21 22332 3344667889999999999999998742     21  


Q ss_pred             CCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC-CCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc---CC
Q 036731           83 QSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVR-PDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA---GL  158 (259)
Q Consensus        83 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~  158 (259)
                      +.-..+++.|..+|.+.|++++|...+++..+.--. +......-...++.+...|+..+++++|..+++...+.   -+
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            112456788888999999999988888765421111 00000112356777888899999999999999876542   11


Q ss_pred             CCC----hhhHHHHHHHHHhcCChhHHHHHHHHHHhc----CC--CC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--
Q 036731          159 MPN----VVTYNITIHALCNDEQMDKAHDLFLDMEVK----GV--AP-NCVIFTTLMPSFIRKNETSKVIELLRSMDK--  225 (259)
Q Consensus       159 ~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~--~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--  225 (259)
                      .++    ..+++.+...|...|++++|.+++++....    +.  .+ ....++.|...|.+.+++++|.++|.+...  
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    357899999999999999999999988654    11  22 245678888999999999999999987543  


Q ss_pred             --CCC--ccchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          226 --RNV--MPYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       226 --~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                        .|.  +....+|.-|...|...|++++|+++.+
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~  474 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEE  474 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHH
Confidence              222  2345678899999999999999998754

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.45  E-value=1.7e-10  Score=98.23  Aligned_cols=249  Identities=14%  Similarity=0.026  Sum_probs=171.6

Q ss_pred             Cccccccc---ccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731            4 GNREFGVV---CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus         4 a~~~~~~~---~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      |.+.++..   -+.+...+..+...+...|++++|...++++.+. .+.+.. +..+..++...|+.++|+..++++.+.
T Consensus        68 A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~-~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~  145 (765)
T PRK10049         68 SLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSG-APDKAN-LLALAYVYKRAGRHWDELRAMTQALPR  145 (765)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            44445543   2335677888889999999999999999999876 244555 888888999999999999999999987


Q ss_pred             CCCCchhhHHHHHHHHHHcCCHHHHHHHHH----------------------------------------------HHHh
Q 036731           81 GLQSDVVTFNVIMDELCKNRKMDEATRLLD----------------------------------------------LMIQ  114 (259)
Q Consensus        81 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~----------------------------------------------~~~~  114 (259)
                      ... +...+..+..++...+..+.|+..++                                              .+.+
T Consensus       146 ~P~-~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~  224 (765)
T PRK10049        146 APQ-TQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEA  224 (765)
T ss_pred             CCC-CHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHh
Confidence            433 45555566667766666665554444                                              3332


Q ss_pred             C-CCCCCCccchh-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          115 G-GVRPDAFCEIN-IVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM-PNVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       115 ~-~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      . ...|+.  .+. .......+..+...|++++|+..|+.+.+.+.. |+. .-..+..++...|++++|...|+++.+.
T Consensus       225 ~~~~~p~~--~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~  301 (765)
T PRK10049        225 LWHDNPDA--TADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYH  301 (765)
T ss_pred             hcccCCcc--chHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhc
Confidence            1 111111  000 111111134456779999999999999887532 322 2223567899999999999999998765


Q ss_pred             CCCC---cHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-----------ccc---hHHHHHHHHHHHHhcccCCcchh
Q 036731          192 GVAP---NCVIFTTLMPSFIRKNETSKVIELLRSMDKRNV-----------MPY---ASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       192 ~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      .-..   .......+..++...|++++|.++++.+.+...           .|+   ...+..+...+...|+.++|++.
T Consensus       302 ~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~  381 (765)
T PRK10049        302 PETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMR  381 (765)
T ss_pred             CCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            2111   134566677788999999999999999886531           122   23456777889999999999998


Q ss_pred             hhcc
Q 036731          255 FNRQ  258 (259)
Q Consensus       255 ~~~~  258 (259)
                      ++++
T Consensus       382 l~~a  385 (765)
T PRK10049        382 AREL  385 (765)
T ss_pred             HHHH
Confidence            8763

>PRK12370 invasion protein regulator; Provisional

Probab=99.45  E-value=1.3e-10  Score=95.31  Aligned_cols=209  Identities=12%  Similarity=0.074  Sum_probs=152.2

Q ss_pred             Cccccccccc--C-CHHHHHHHHHHHH---------hcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHH
Q 036731            4 GNREFGVVCK--P-NTVTYNTIIDGLC---------KEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAE   71 (259)
Q Consensus         4 a~~~~~~~~~--~-~~~~~~~ll~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~   71 (259)
                      |...|+..++  | +...|..+..++.         ..+++++|...+++..+.. +-+...+..+...+...|++++|.
T Consensus       280 A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~  358 (553)
T PRK12370        280 ALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGS  358 (553)
T ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHH
Confidence            4445555443  3 3455655555443         2345889999999998774 446778888888899999999999


Q ss_pred             HHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHH
Q 036731           72 YLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQ  151 (259)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  151 (259)
                      ..+++..+.+ +.+...+..+..++...|++++|...+++..+.+  |.     +...+..++..+...|++++|...++
T Consensus       359 ~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~-----~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        359 LLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PT-----RAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CC-----ChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            9999999875 3356678889999999999999999999998764  33     22344445556777899999999999


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcH-HHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          152 SLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNC-VIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       152 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      +......+-+...+..+..++...|+.++|...++++...  .|+. ...+.+...+...|  +.|...++.+.+
T Consensus       431 ~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        431 ELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            9876532223445677788888999999999999998765  4443 33445555666666  477777777664

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.45  E-value=8.6e-11  Score=99.05  Aligned_cols=251  Identities=10%  Similarity=0.010  Sum_probs=158.4

Q ss_pred             CCcccccccccCCHH-HHHHH--HHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHH
Q 036731            3 NGNREFGVVCKPNTV-TYNTI--IDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMD   79 (259)
Q Consensus         3 ~a~~~~~~~~~~~~~-~~~~l--l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~   79 (259)
                      .|...+++-+.|+.. .+..+  ...+...|++++|.++|+++.+.. +-+...+..++..+...++.++|++.++++..
T Consensus        86 ~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~  164 (822)
T PRK14574         86 EVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAE  164 (822)
T ss_pred             HHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcc
Confidence            344455555555332 23333  457778899999999999998763 33566677778888888999999999888877


Q ss_pred             cCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCc-------------------------------------
Q 036731           80 RGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAF-------------------------------------  122 (259)
Q Consensus        80 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------------------------------------  122 (259)
                      .  .|+...+..++..+...++..+|++.++++.+..  |+..                                     
T Consensus       165 ~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~--P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~  240 (822)
T PRK14574        165 R--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA--PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQ  240 (822)
T ss_pred             c--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHH
Confidence            6  4455555444444444566656888888887653  3322                                     


Q ss_pred             ------------------------------------------cchh-----HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 036731          123 ------------------------------------------CEIN-----IVAYGCLIDGLCKIGKLKNARELSQSLTR  155 (259)
Q Consensus       123 ------------------------------------------~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  155 (259)
                                                                ..|.     .....-.+-++...|+..++++.|+.+..
T Consensus       241 l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~  320 (822)
T PRK14574        241 LERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEA  320 (822)
T ss_pred             HHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhh
Confidence                                                      0010     11222334455666777777777777777


Q ss_pred             cCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC-----CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC--
Q 036731          156 AGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG-----VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNV--  228 (259)
Q Consensus       156 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--  228 (259)
                      .+.+....+-..+..+|...+++++|+.+++.+....     ..++......|.-++...+++++|..+++.+.+...  
T Consensus       321 ~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~  400 (822)
T PRK14574        321 EGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQ  400 (822)
T ss_pred             cCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcE
Confidence            6655445566777777777788888888887775542     122333346677777777888888888877765311  


Q ss_pred             ---------ccc---hHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          229 ---------MPY---ASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       229 ---------~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                               .|+   ...+..++..+.-.|+..+|.+.++++
T Consensus       401 ~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l  442 (822)
T PRK14574        401 VGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDL  442 (822)
T ss_pred             EeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                     111   223344566677777777777776653

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

Probab=99.44  E-value=1.3e-09  Score=75.98  Aligned_cols=208  Identities=10%  Similarity=0.033  Sum_probs=167.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELC   97 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   97 (259)
                      +...|.-.|.+.|++..|..-+++.++.. +-+..+|..+...|-+.|+.+.|.+-|+........ +..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHH
Confidence            45667788999999999999999998873 445678888889999999999999999998877433 6677888888899


Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 036731           98 KNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQ  177 (259)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (259)
                      ..|++++|...|++....-.-+.     ...+|..+.-+..+.|+.+.|...|++..+.... ...+...+.......|+
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~-----~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~  188 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGE-----PSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGD  188 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCC-----cchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhccc
Confidence            99999999999998886544443     2478999999999999999999999998887533 45567778888889999


Q ss_pred             hhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHH
Q 036731          178 MDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILS  236 (259)
Q Consensus       178 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  236 (259)
                      +-.|...++.....+. ++..+....|+.-...|+-+.+.++=.++...  -|.+.-+.
T Consensus       189 y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~q  244 (250)
T COG3063         189 YAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEYQ  244 (250)
T ss_pred             chHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHH
Confidence            9999999988887764 88888888888888899998888877666654  34444443

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

Probab=99.44  E-value=6.4e-12  Score=91.61  Aligned_cols=214  Identities=10%  Similarity=-0.011  Sum_probs=178.6

Q ss_pred             CCcccccccc--cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731            3 NGNREFGVVC--KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus         3 ~a~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      +|++-|+...  +|-+.||-.|-.+|.+-.+...|+.++.+-.+. .+.|+....-+.+.+-..++.++|.++|+...+.
T Consensus       241 ~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~  319 (478)
T KOG1129|consen  241 RAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKL  319 (478)
T ss_pred             hhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhc
Confidence            4555665554  578899999999999999999999999998876 3444444456778888999999999999998876


Q ss_pred             CCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 036731           81 GLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP  160 (259)
Q Consensus        81 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (259)
                      . +.+++...++...|.-.++++-|+..++++.+.|..       ++..|+.+.-+|.-.+++|.++.-|++....--.|
T Consensus       320 ~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-------speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~  391 (478)
T KOG1129|consen  320 H-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-------SPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQP  391 (478)
T ss_pred             C-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-------ChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCc
Confidence            3 346777777888888999999999999999999987       45899999999999999999999999887653333


Q ss_pred             C--hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          161 N--VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       161 ~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      +  ..+|-.+-...+..|++..|.+.|+-....+ .-+...++.|.-.-.+.|++++|..+++.....
T Consensus       392 ~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  392 GQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             chhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            3  4478888888899999999999999988764 346788999988889999999999999988765

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

Probab=99.43  E-value=3.3e-11  Score=95.28  Aligned_cols=205  Identities=13%  Similarity=0.051  Sum_probs=170.4

Q ss_pred             cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHH-
Q 036731           13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFN-   90 (259)
Q Consensus        13 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-   90 (259)
                      +-.+.+|.++...|.-+++.+.|++.|++..+.  .| ...+|+.+..-+.....+|.|...|+..+..    |...|+ 
T Consensus       418 ~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~----~~rhYnA  491 (638)
T KOG1126|consen  418 PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV----DPRHYNA  491 (638)
T ss_pred             CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC----CchhhHH
Confidence            446889999999999999999999999999876  44 6788999888899999999999999887765    444444 


Q ss_pred             --HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 036731           91 --VIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNIT  168 (259)
Q Consensus        91 --~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  168 (259)
                        -|...|.+.++++.|+-.|+...+.+  |.     +.+....+...+.+.|+.++|++++++....+.+ |+..--..
T Consensus       492 wYGlG~vy~Kqek~e~Ae~~fqkA~~IN--P~-----nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~  563 (638)
T KOG1126|consen  492 WYGLGTVYLKQEKLEFAEFHFQKAVEIN--PS-----NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHR  563 (638)
T ss_pred             HHhhhhheeccchhhHHHHHHHhhhcCC--cc-----chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHH
Confidence              57788999999999999999988754  43     5688888999999999999999999999887644 55454556


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccch
Q 036731          169 IHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYA  232 (259)
Q Consensus       169 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  232 (259)
                      ...+...+++++|+..++++++. ++-+..+|..+...|.+.|+.+.|..-|.-+.+.+.++..
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~~  626 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGAQ  626 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccch
Confidence            67778889999999999999987 3445567888889999999999999999988876554433

>TIGR00540 hemY_coli hemY protein

Probab=99.41  E-value=6.5e-10  Score=88.03  Aligned_cols=226  Identities=15%  Similarity=0.145  Sum_probs=158.6

Q ss_pred             HHHHHHHH--HhcCChHHHHHHHHHHhhCCCCCchHh-HHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           19 YNTIIDGL--CKEGFVDKAKELFLQMKDENINPNVVT-YNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        19 ~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      +..+..+.  ...|+++.|.+.+.+..+.  .|+... +-....+....|+++.|.+.+.+..+....+...........
T Consensus        85 ~~~~~~glla~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l  162 (409)
T TIGR00540        85 QKQTEEALLKLAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRI  162 (409)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHH
Confidence            33444443  4579999999999887765  455433 344457788899999999999998766322222344446888


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---------------
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP---------------  160 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------  160 (259)
                      +...|+++.|...++.+.+..  |+     +..+...+...+...|+++.|.+.+..+.+.++.+               
T Consensus       163 ~l~~~~~~~Al~~l~~l~~~~--P~-----~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~  235 (409)
T TIGR00540       163 LLAQNELHAARHGVDKLLEMA--PR-----HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGL  235 (409)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            899999999999999999864  44     45788999999999999999999998888664321               


Q ss_pred             --------------------------ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHH---HHHHHHHHhcC
Q 036731          161 --------------------------NVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIF---TTLMPSFIRKN  211 (259)
Q Consensus       161 --------------------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~---~~l~~~~~~~~  211 (259)
                                                +...+..+...+...|+.++|.+++++..+.  .|+....   ..........+
T Consensus       236 l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~  313 (409)
T TIGR00540       236 LDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPE  313 (409)
T ss_pred             HHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCC
Confidence                                      2333344455566778888888888887775  3443321   11112223356


Q ss_pred             CHHHHHHHHHHHhhCCCccch--HHHHHHHHHHHHhcccCCcchhhh
Q 036731          212 ETSKVIELLRSMDKRNVMPYA--SILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       212 ~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                      +.+.+.+.++...+.. +-+.  ....++...+.+.|++++|.+.|+
T Consensus       314 ~~~~~~~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le  359 (409)
T TIGR00540       314 DNEKLEKLIEKQAKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFK  359 (409)
T ss_pred             ChHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHH
Confidence            7777777777766552 2233  556688888999999999998887

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.39  E-value=6.8e-10  Score=87.53  Aligned_cols=189  Identities=8%  Similarity=-0.003  Sum_probs=147.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCC-------------------
Q 036731           23 IDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ-------------------   83 (259)
Q Consensus        23 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-------------------   83 (259)
                      ...+...|+++.|...++++.+.. +-+......+...|.+.|++++|.+++..+.+.+..                   
T Consensus       160 a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~  238 (398)
T PRK10747        160 VRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQ  238 (398)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHH
Confidence            567778888888888888887764 445677778888888888888888777777654322                   


Q ss_pred             ----------------------CchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC
Q 036731           84 ----------------------SDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG  141 (259)
Q Consensus        84 ----------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  141 (259)
                                            .++.....+...+...|+.++|.+++++..+.  .++        .-..++.+....+
T Consensus       239 ~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~--------~~l~~l~~~l~~~  308 (398)
T PRK10747        239 AMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYD--------ERLVLLIPRLKTN  308 (398)
T ss_pred             HHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCC--------HHHHHHHhhccCC
Confidence                                  13334455677788899999999999888773  222        1222344445669


Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Q 036731          142 KLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLR  221 (259)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  221 (259)
                      +.+++.+..+...+... -|...+..+...+.+.+++++|.+.|+...+.  .|+..++..+...+.+.|+.++|.++++
T Consensus       309 ~~~~al~~~e~~lk~~P-~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~  385 (398)
T PRK10747        309 NPEQLEKVLRQQIKQHG-DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRR  385 (398)
T ss_pred             ChHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999988743 35667888899999999999999999999987  7999999999999999999999999999


Q ss_pred             HHhh
Q 036731          222 SMDK  225 (259)
Q Consensus       222 ~~~~  225 (259)
                      +...
T Consensus       386 ~~l~  389 (398)
T PRK10747        386 DGLM  389 (398)
T ss_pred             HHHh
Confidence            8654

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.37  E-value=4.5e-09  Score=79.53  Aligned_cols=214  Identities=12%  Similarity=-0.020  Sum_probs=147.3

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ...|..+...+.+.|+.++|...|++..+.. +.+...|+.+...+...|++++|...|+...+.... +..+|..+..+
T Consensus        64 a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~  141 (296)
T PRK11189         64 AQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAYLNRGIA  141 (296)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            4567788888999999999999999998763 446788999999999999999999999999876422 46678888888


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND  175 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  175 (259)
                      +...|++++|.+.|++..+.  .|+.     . ........+...++.++|...+++..... .|+.  |.. .......
T Consensus       142 l~~~g~~~eA~~~~~~al~~--~P~~-----~-~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~~--~~~-~~~~~~l  209 (296)
T PRK11189        142 LYYGGRYELAQDDLLAFYQD--DPND-----P-YRALWLYLAESKLDPKQAKENLKQRYEKL-DKEQ--WGW-NIVEFYL  209 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CCCC-----H-HHHHHHHHHHccCCHHHHHHHHHHHHhhC-Cccc--cHH-HHHHHHc
Confidence            99999999999999998875  3432     1 11222233455678999999997755432 2232  221 2223345


Q ss_pred             CChhHHHHHHHHHHhc---CC--C-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHH
Q 036731          176 EQMDKAHDLFLDMEVK---GV--A-PNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVK  244 (259)
Q Consensus       176 ~~~~~a~~~~~~~~~~---~~--~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  244 (259)
                      |+...+ ..+..+.+.   ..  . .....|..+...+.+.|++++|...|++..+.++....+.-..++.....
T Consensus       210 g~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~e~~~~~~e~~~~  283 (296)
T PRK11189        210 GKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFVEHRYALLELALL  283 (296)
T ss_pred             cCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHH
Confidence            665544 344444422   11  1 12457888999999999999999999999887643333333334444333

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.36  E-value=6.6e-10  Score=93.84  Aligned_cols=126  Identities=9%  Similarity=0.025  Sum_probs=86.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcC
Q 036731           21 TIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNR  100 (259)
Q Consensus        21 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  100 (259)
                      .++..+...|+.++|+..+++.... .+........+...+...|++++|+++|+++.+.... +...+..++..+...+
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~  150 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQALALWQSSLKKDPT-NPDLISGMIMTQADAG  150 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcC
Confidence            7777788888889998888888721 1222333333355778889999999999999887433 4666667788888889


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          101 KMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       101 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      +.++|++.++++....  |+      ...+..++..+...++..+|+..++++.+.
T Consensus       151 q~~eAl~~l~~l~~~d--p~------~~~~l~layL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        151 RGGVVLKQATELAERD--PT------VQNYMTLSYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             CHHHHHHHHHHhcccC--cc------hHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            9999999988887642  22      244444444444455565588888877765

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.36  E-value=1.1e-09  Score=82.76  Aligned_cols=213  Identities=10%  Similarity=-0.037  Sum_probs=151.3

Q ss_pred             CChHHHHHHHHHHhhCC-CCCc--hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHH
Q 036731           30 GFVDKAKELFLQMKDEN-INPN--VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEAT  106 (259)
Q Consensus        30 ~~~~~a~~~~~~~~~~~-~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  106 (259)
                      +..+.++.-+.++.... ..|+  ...|..+...+...|+.+.|...|++..+... .+...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHHH
Confidence            44566777777777542 2222  35577888889999999999999999988743 36789999999999999999999


Q ss_pred             HHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHH
Q 036731          107 RLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFL  186 (259)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  186 (259)
                      ..|++..+.  .|+     +..++..+..++...|++++|...++...+..  |+..............+++++|...+.
T Consensus       119 ~~~~~Al~l--~P~-----~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~  189 (296)
T PRK11189        119 EAFDSVLEL--DPT-----YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLK  189 (296)
T ss_pred             HHHHHHHHh--CCC-----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHH
Confidence            999999875  444     45788889999999999999999999998864  443322222333456778999999997


Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh---CCC---ccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          187 DMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK---RNV---MPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       187 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~---~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      +..... .|+...+ .+..  ...|+...+ +.+..+.+   ..+   +.....|..+...+.+.|+.++|+..|++
T Consensus       190 ~~~~~~-~~~~~~~-~~~~--~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~  261 (296)
T PRK11189        190 QRYEKL-DKEQWGW-NIVE--FYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKL  261 (296)
T ss_pred             HHHhhC-CccccHH-HHHH--HHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            765432 3332222 2222  334555443 34444432   111   11346788999999999999999999875

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

Probab=99.35  E-value=4.9e-10  Score=85.56  Aligned_cols=207  Identities=16%  Similarity=0.141  Sum_probs=164.5

Q ss_pred             hcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHH
Q 036731           28 KEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATR  107 (259)
Q Consensus        28 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  107 (259)
                      .+|++++|.+.|++.......-....||.-+ .+-..|++++|++.|-++... +..+..+...+...|-...+...|++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            4688999999999998764443444444433 567789999999999887654 33467777888899999999999999


Q ss_pred             HHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 036731          108 LLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLD  187 (259)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  187 (259)
                      ++.+...  +.|+     |+.+...|...|-+.|+-.+|++.+-+--.. ++-+..+...|..-|....-++++...|++
T Consensus       580 ~~~q~~s--lip~-----dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ek  651 (840)
T KOG2003|consen  580 LLMQANS--LIPN-----DPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEK  651 (840)
T ss_pred             HHHHhcc--cCCC-----CHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            9977654  4454     6799999999999999999999987665443 455788888898889999999999999998


Q ss_pred             HHhcCCCCcHHHHHHHHHHH-HhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcc
Q 036731          188 MEVKGVAPNCVIFTTLMPSF-IRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEI  247 (259)
Q Consensus       188 ~~~~~~~p~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  247 (259)
                      ..-  +.|+..-|..++..| .+.|++++|.++++....+ ++-+......+++.+...|.
T Consensus       652 aal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  652 AAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            765  489999999988655 5689999999999998765 56688888888887776664

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

Probab=99.31  E-value=4.4e-09  Score=73.33  Aligned_cols=192  Identities=12%  Similarity=-0.016  Sum_probs=159.6

Q ss_pred             HhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHH
Q 036731           52 VTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYG  131 (259)
Q Consensus        52 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (259)
                      .+...|.-.|...|+...|..-+++.+++... +..+|..+...|.+.|+.+.|.+-|++..+..  |+     +..+.|
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~--p~-----~GdVLN  107 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA--PN-----NGDVLN  107 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC--CC-----ccchhh
Confidence            34566778899999999999999999998433 67789999999999999999999999998754  33     458999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCC-CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 036731          132 CLIDGLCKIGKLKNARELSQSLTRAGL-MPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRK  210 (259)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  210 (259)
                      .....+|..|++++|...|++....-. .....+|..+.-+..+.|+.+.|...|++..+.. +-...+...+.......
T Consensus       108 NYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~  186 (250)
T COG3063         108 NYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKA  186 (250)
T ss_pred             hhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhc
Confidence            999999999999999999999887532 2235588899989999999999999999998873 22345677888888999


Q ss_pred             CCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcch
Q 036731          211 NETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIP  253 (259)
Q Consensus       211 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  253 (259)
                      |++..|...++.....+. ++.......|+.-...|+.+.+-+
T Consensus       187 ~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~  228 (250)
T COG3063         187 GDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQR  228 (250)
T ss_pred             ccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHH
Confidence            999999999999887765 888888888888888887655543

>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=99.30  E-value=7.7e-09  Score=83.00  Aligned_cols=125  Identities=11%  Similarity=0.119  Sum_probs=78.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN-VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      ++.-+...|-..|++++|+.++++..+..  |+ +..|..-.+.+-+.|++.+|.+.++..+..+ .-|...-+-....+
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~ht--Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~  272 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIEHT--PTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYL  272 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHH
Confidence            34455666667777777777777776652  33 4466666677777777777777777776654 23555555666667


Q ss_pred             HhcCCHHHHHHHHHHHhhCCCccchHHH--------HHHHHHHHHhcccCCcchhhh
Q 036731          208 IRKNETSKVIELLRSMDKRNVMPYASIL--------SIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       208 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~--------~~l~~~~~~~g~~~~a~~~~~  256 (259)
                      .+.|++++|.+++....+.+..|....+        .....+|.+.|++..|++-|.
T Consensus       273 LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~  329 (517)
T PF12569_consen  273 LRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFH  329 (517)
T ss_pred             HHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            7777777777777776655543322221        344566677777766666553

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 [], [].

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

Probab=99.30  E-value=2.1e-09  Score=82.64  Aligned_cols=228  Identities=14%  Similarity=0.054  Sum_probs=173.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELC   97 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   97 (259)
                      +.+.....+.-.|+.-.|.+-|+..+...-. +...|--+...|....+.++..+.|++..+.+.. ++.+|..-...+.
T Consensus       328 al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~-~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~f  405 (606)
T KOG0547|consen  328 ALLLRGTFHFLKGDSLGAQEDFDAAIKLDPA-FNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRF  405 (606)
T ss_pred             HHHHhhhhhhhcCCchhhhhhHHHHHhcCcc-cchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHH
Confidence            3333334455678888999999998876422 3333777778899999999999999999887544 6777888888888


Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 036731           98 KNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQ  177 (259)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (259)
                      -.+++++|..=|++.+..  .|+     ++..|.-+.-+..+.+.++++...|++.++. ++--+..|+.....+...++
T Consensus       406 lL~q~e~A~aDF~Kai~L--~pe-----~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqq  477 (606)
T KOG0547|consen  406 LLQQYEEAIADFQKAISL--DPE-----NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQ  477 (606)
T ss_pred             HHHHHHHHHHHHHHHhhc--Chh-----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHh
Confidence            888999999999988764  444     5677777777778889999999999999887 44467789999999999999


Q ss_pred             hhHHHHHHHHHHhcC-----C--CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCC
Q 036731          178 MDKAHDLFLDMEVKG-----V--APNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLN  250 (259)
Q Consensus       178 ~~~a~~~~~~~~~~~-----~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  250 (259)
                      ++.|.+.|+...+..     +  .+.+.+-..++..- -.+++..|.+++++..+.+.. ....+..+.+.-.+.|+.++
T Consensus       478 Fd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~e  555 (606)
T KOG0547|consen  478 FDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDE  555 (606)
T ss_pred             HHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHH
Confidence            999999999887651     1  11122222222222 348899999999999887533 55678899999999999999


Q ss_pred             cchhhhc
Q 036731          251 SIPQFNR  257 (259)
Q Consensus       251 a~~~~~~  257 (259)
                      |+++|++
T Consensus       556 AielFEk  562 (606)
T KOG0547|consen  556 AIELFEK  562 (606)
T ss_pred             HHHHHHH
Confidence            9999975

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

Probab=99.27  E-value=8.2e-09  Score=84.74  Aligned_cols=93  Identities=13%  Similarity=0.096  Sum_probs=63.2

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHH
Q 036731          164 TYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLV  243 (259)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  243 (259)
                      .|.-+..++...|++.+|+.+|..+......-+...|-.+.++|...|.+++|.+.+...+... +.+...-..|...+.
T Consensus       416 L~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~  494 (895)
T KOG2076|consen  416 LYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQ  494 (895)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHH
Confidence            3455566677777777777777777766444455677777777777777777777777776552 234455556667777


Q ss_pred             HhcccCCcchhhhc
Q 036731          244 KNEISLNSIPQFNR  257 (259)
Q Consensus       244 ~~g~~~~a~~~~~~  257 (259)
                      +.|+.++|.+.+.+
T Consensus       495 ~~g~~EkalEtL~~  508 (895)
T KOG2076|consen  495 QLGNHEKALETLEQ  508 (895)
T ss_pred             hcCCHHHHHHHHhc
Confidence            77777777777655

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

Probab=99.26  E-value=1.9e-08  Score=75.58  Aligned_cols=226  Identities=15%  Similarity=0.174  Sum_probs=155.4

Q ss_pred             HHHHHHh--cCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHc
Q 036731           22 IIDGLCK--EGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKN   99 (259)
Q Consensus        22 ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   99 (259)
                      +..+..+  .|+|..|+++..+-.+.+-. ....|..-..+.-..|+.+.+-.++.+..+..-.++....-+..+.....
T Consensus        88 ~~egl~~l~eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~  166 (400)
T COG3071          88 LNEGLLKLFEGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNR  166 (400)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhC
Confidence            4444433  79999999999998777533 34456666778889999999999999998875556677777788889999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh-------hhHHHHHHHH
Q 036731          100 RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNV-------VTYNITIHAL  172 (259)
Q Consensus       100 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~li~~~  172 (259)
                      |+++.|..-++++.+.+..       ++.+.....++|.+.|++.....+...+.+.|.--+.       .+|..+++-.
T Consensus       167 ~d~~aA~~~v~~ll~~~pr-------~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~  239 (400)
T COG3071         167 RDYPAARENVDQLLEMTPR-------HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQA  239 (400)
T ss_pred             CCchhHHHHHHHHHHhCcC-------ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHH
Confidence            9999999999999886544       3489999999999999999999999999988764332       2344444433


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC-------------------------
Q 036731          173 CNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN-------------------------  227 (259)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------------------  227 (259)
                      ...+..+.-.+.|+..... .+-++..-..++.-+.+.|+.++|.++..+..+++                         
T Consensus       240 ~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e  318 (400)
T COG3071         240 RDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAE  318 (400)
T ss_pred             hccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHH
Confidence            3333333333344443322 22233334444444445555555544444333211                         


Q ss_pred             -----CccchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          228 -----VMPYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       228 -----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                           .+-++..+..+...|.+.+.|.+|.+.|+
T Consensus       319 ~~l~~h~~~p~L~~tLG~L~~k~~~w~kA~~~le  352 (400)
T COG3071         319 KWLKQHPEDPLLLSTLGRLALKNKLWGKASEALE  352 (400)
T ss_pred             HHHHhCCCChhHHHHHHHHHHHhhHHHHHHHHHH
Confidence                 22345778889999999999988888776

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

Probab=99.23  E-value=4.4e-09  Score=80.50  Aligned_cols=183  Identities=11%  Similarity=0.038  Sum_probs=138.4

Q ss_pred             cCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCCh
Q 036731           64 ANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKL  143 (259)
Q Consensus        64 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  143 (259)
                      .|++++|.+.|.+.....-.-....| .+.-.+-..|++++|++.|-++...  -.+     +..+...+...|-...+.
T Consensus       503 ngd~dka~~~ykeal~ndasc~ealf-niglt~e~~~~ldeald~f~klh~i--l~n-----n~evl~qianiye~led~  574 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASCTEALF-NIGLTAEALGNLDEALDCFLKLHAI--LLN-----NAEVLVQIANIYELLEDP  574 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHHHHHHH-HhcccHHHhcCHHHHHHHHHHHHHH--HHh-----hHHHHHHHHHHHHHhhCH
Confidence            46788888888887765322122222 2344566778899999888776542  111     557788888889888999


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 036731          144 KNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSM  223 (259)
Q Consensus       144 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  223 (259)
                      .+|++++-+.... ++.|+.....|...|-+.|+-.+|.+.+-+--.- ++.+..+...|...|....-++++..+|++.
T Consensus       575 aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~eka  652 (840)
T KOG2003|consen  575 AQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKA  652 (840)
T ss_pred             HHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            9999888776554 4557788889999999999999998876554333 5678899999999999999999999999986


Q ss_pred             hhCCCccchHHHHHHHHH-HHHhcccCCcchhhhcc
Q 036731          224 DKRNVMPYASILSIIVDL-LVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       224 ~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~~  258 (259)
                      .-  ++|+..-|..++.. +.+.|++..|+++|+.+
T Consensus       653 al--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~  686 (840)
T KOG2003|consen  653 AL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDI  686 (840)
T ss_pred             Hh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            53  58899989876655 56789999999999865

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

Probab=99.19  E-value=1.5e-09  Score=81.27  Aligned_cols=222  Identities=12%  Similarity=0.077  Sum_probs=139.2

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCC-chhhHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQS-DVVTFNVIMD   94 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~   94 (259)
                      ......+.+++...|+++.++   .+..... .|.......+...+...++-+.++.-+++.......+ +.........
T Consensus        35 ~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~  110 (290)
T PF04733_consen   35 LERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAAT  110 (290)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHH
Confidence            334455677778888776543   3443333 6666666666655554455556655555544333332 3333233334


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      .+...|++++|++++...      .      +.......+.+|.+.++++.|.+.++.|.+.+   +..+...+..++..
T Consensus       111 i~~~~~~~~~AL~~l~~~------~------~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~---eD~~l~qLa~awv~  175 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG------G------SLELLALAVQILLKMNRPDLAEKELKNMQQID---EDSILTQLAEAWVN  175 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT------T------CHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS---CCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHcc------C------cccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---CcHHHHHHHHHHHH
Confidence            566678888888877542      1      34677778888999999999999999988753   33444555555443


Q ss_pred             ----cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhccc-C
Q 036731          175 ----DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEIS-L  249 (259)
Q Consensus       175 ----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~  249 (259)
                          .+.+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++.+..+.+. -+..+..-++.+....|+. +
T Consensus       176 l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~-~~~d~LaNliv~~~~~gk~~~  253 (290)
T PF04733_consen  176 LATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP-NDPDTLANLIVCSLHLGKPTE  253 (290)
T ss_dssp             HHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C-CHHHHHHHHHHHHHHTT-TCH
T ss_pred             HHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHhCCChh
Confidence                34688999999998665 567888888888888999999999999988876653 3566666777777777777 3


Q ss_pred             Ccchhhhcc
Q 036731          250 NSIPQFNRQ  258 (259)
Q Consensus       250 ~a~~~~~~~  258 (259)
                      .+.+.+.++
T Consensus       254 ~~~~~l~qL  262 (290)
T PF04733_consen  254 AAERYLSQL  262 (290)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHHH
Confidence            344555544

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.18  E-value=2.4e-08  Score=79.54  Aligned_cols=210  Identities=15%  Similarity=0.105  Sum_probs=154.1

Q ss_pred             CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc-----C-CCCchh-hHHHHHHHHHHcCCHHHHHHHHHHHHhC---
Q 036731           46 NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR-----G-LQSDVV-TFNVIMDELCKNRKMDEATRLLDLMIQG---  115 (259)
Q Consensus        46 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  115 (259)
                      +.+.-..+...+...|...|+++.|..+++...+.     | ..|... ..+.+...|...+++++|..+|+++...   
T Consensus       194 ~~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~  273 (508)
T KOG1840|consen  194 EDPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREE  273 (508)
T ss_pred             CCchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence            33334566677889999999999999999988754     2 123333 3344777899999999999999987632   


Q ss_pred             CCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-----CCC-CCh-hhHHHHHHHHHhcCChhHHHHHHHHH
Q 036731          116 GVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA-----GLM-PNV-VTYNITIHALCNDEQMDKAHDLFLDM  188 (259)
Q Consensus       116 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~~~-~~~~~li~~~~~~~~~~~a~~~~~~~  188 (259)
                      ...++.  +.-..+++.|...|.+.|++++|...++...+.     |.. |.. ..++.+...+...+++++|..+++..
T Consensus       274 ~~G~~h--~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~a  351 (508)
T KOG1840|consen  274 VFGEDH--PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKA  351 (508)
T ss_pred             hcCCCC--HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            122221  224678888999999999999999888876532     211 222 24667778888999999999999876


Q ss_pred             Hhc---CCCC----cHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-----C--CccchHHHHHHHHHHHHhcccCCcchh
Q 036731          189 EVK---GVAP----NCVIFTTLMPSFIRKNETSKVIELLRSMDKR-----N--VMPYASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       189 ~~~---~~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      .+.   -..+    -..+++.|...|...|++++|.++++..+..     +  ..-....++.+...|.+.++..+|.++
T Consensus       352 l~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l  431 (508)
T KOG1840|consen  352 LKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQL  431 (508)
T ss_pred             HHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHH
Confidence            543   1112    2467999999999999999999999987642     1  222355788899999999999999999


Q ss_pred             hhc
Q 036731          255 FNR  257 (259)
Q Consensus       255 ~~~  257 (259)
                      |.+
T Consensus       432 ~~~  434 (508)
T KOG1840|consen  432 FEE  434 (508)
T ss_pred             HHH
Confidence            875

>PF12854 PPR_1: PPR repeat

Probab=99.16  E-value=6.2e-11  Score=57.92  Aligned_cols=34  Identities=62%  Similarity=0.995  Sum_probs=25.8

Q ss_pred             ccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHh
Q 036731           10 VVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMK   43 (259)
Q Consensus        10 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   43 (259)
                      +|++||..|||+||.+|++.|++++|.++|++|.
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3667777788888888888888888877777763

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

Probab=99.14  E-value=5e-08  Score=80.97  Aligned_cols=233  Identities=12%  Similarity=0.067  Sum_probs=168.0

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCC--CchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchh--hH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENIN--PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVV--TF   89 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~   89 (259)
                      -|+...+.|...|.-.|++..+..+...+......  .-...|..+.++|-..|++++|..+|.+..+.  .++..  .+
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~~  345 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPL  345 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCccccc
Confidence            46777888889999999999999999888765311  22456888899999999999999999888765  33433  33


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC----ChHHHHHHHHHHHHcCCCCChhhH
Q 036731           90 NVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG----KLKNARELSQSLTRAGLMPNVVTY  165 (259)
Q Consensus        90 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~  165 (259)
                      --+...|...|+++.+...|+.+.+.  .|+     +..+...+...|...+    ..+.|..++.+..+.- +.|...|
T Consensus       346 ~GlgQm~i~~~dle~s~~~fEkv~k~--~p~-----~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~  417 (1018)
T KOG2002|consen  346 VGLGQMYIKRGDLEESKFCFEKVLKQ--LPN-----NYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAW  417 (1018)
T ss_pred             cchhHHHHHhchHHHHHHHHHHHHHh--Ccc-----hHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHH
Confidence            45788899999999999999998875  333     4577777777777665    4567777777776653 3367777


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHH----hcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC---CCccch------
Q 036731          166 NITIHALCNDEQMDKAHDLFLDME----VKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR---NVMPYA------  232 (259)
Q Consensus       166 ~~li~~~~~~~~~~~a~~~~~~~~----~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------  232 (259)
                      -.+...+....- ..++.+|....    ..+..+.+...|.+.......|.+.+|...|......   ...++.      
T Consensus       418 l~laql~e~~d~-~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~l  496 (1018)
T KOG2002|consen  418 LELAQLLEQTDP-WASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNL  496 (1018)
T ss_pred             HHHHHHHHhcCh-HHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchh
Confidence            777777665444 33366666543    4455577889999999999999999999999887654   112222      


Q ss_pred             HHHHHHHHHHHHhcccCCcchhhhc
Q 036731          233 SILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       233 ~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      .+-.-+..++...++++.|.+.|+.
T Consensus       497 t~~YNlarl~E~l~~~~~A~e~Yk~  521 (1018)
T KOG2002|consen  497 TLKYNLARLLEELHDTEVAEEMYKS  521 (1018)
T ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHH
Confidence            2333466667777788888887765

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

Probab=99.13  E-value=5.6e-08  Score=75.07  Aligned_cols=127  Identities=9%  Similarity=0.078  Sum_probs=100.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      ..|.-+...|....+.++..+.|....+.+.. ++.+|..-.+...-.+++++|..=|++..... +-+...|..+.-+.
T Consensus       361 ~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~~~~iQl~~a~  438 (606)
T KOG0547|consen  361 SLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PENAYAYIQLCCAL  438 (606)
T ss_pred             hHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhhHHHHHHHHHH
Confidence            34777777788888888888888888776543 66777777777777888888888888887652 22345566666666


Q ss_pred             HhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          208 IRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       208 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      .+.+++++++..|++.+++ ++..++.|+...+.+...+++++|.+.|+.
T Consensus       439 Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~  487 (606)
T KOG0547|consen  439 YRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDK  487 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHH
Confidence            7889999999999999876 456788999999999999999999998864

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

Probab=99.09  E-value=1.4e-08  Score=76.11  Aligned_cols=198  Identities=14%  Similarity=0.059  Sum_probs=138.3

Q ss_pred             ccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHH
Q 036731           12 CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFN   90 (259)
Q Consensus        12 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   90 (259)
                      ..|.......+...+...++-+.+..-+++....+..+ +..........+...|++++|++++..-      .+.....
T Consensus        62 ~~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~a  135 (290)
T PF04733_consen   62 SSPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLA  135 (290)
T ss_dssp             SSCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHH
T ss_pred             CChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHH
Confidence            35666666666555554455566666665554443332 3333333335667789999999988542      3567777


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHH----hcCChHHHHHHHHHHHHcCCCCChhhHH
Q 036731           91 VIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLC----KIGKLKNARELSQSLTRAGLMPNVVTYN  166 (259)
Q Consensus        91 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~  166 (259)
                      ..+.+|.+.++++.|.+.++.|.+.+  .|       .+...+..++.    -.+.+.+|..+|+++.+. ..+++.+.+
T Consensus       136 l~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-------~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~ln  205 (290)
T PF04733_consen  136 LAVQILLKMNRPDLAEKELKNMQQID--ED-------SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLN  205 (290)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHCCS--CC-------HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-------HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHH
Confidence            88999999999999999999998753  22       44444555443    334699999999998765 567888899


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH-HHHHHHHHHHhhC
Q 036731          167 ITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNET-SKVIELLRSMDKR  226 (259)
Q Consensus       167 ~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~  226 (259)
                      .+..++...|++++|..++.+..+.+ +-++.+...++.+....|+. +.+.+++.++...
T Consensus       206 g~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  206 GLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            99999999999999999999988664 34677888888888888888 7788888888765

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.

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

Probab=99.09  E-value=1.5e-07  Score=73.97  Aligned_cols=59  Identities=12%  Similarity=0.071  Sum_probs=27.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 036731          165 YNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMD  224 (259)
Q Consensus       165 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (259)
                      ++.|..++.+.+.+++|+..++...... +-+..++.++.-.|...|+++.|.+.|.+.+
T Consensus       458 ~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL  516 (611)
T KOG1173|consen  458 LNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKAL  516 (611)
T ss_pred             HHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            4444444444444444444444444331 2344444444444444444444444444443

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

Probab=99.07  E-value=1.9e-09  Score=88.35  Aligned_cols=183  Identities=19%  Similarity=0.215  Sum_probs=128.6

Q ss_pred             HHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 036731           37 ELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGG  116 (259)
Q Consensus        37 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  116 (259)
                      .++-.+...|+.|+..||..+|.-||..|+.+.|- +|.-|.-...+.+...|+.++.+....++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            45667888899999999999999999999999999 9999988878888999999999999998877765          


Q ss_pred             CCCCCccchhHHHHHHHHHHHHhcCChHH---HHHHHHHH----HHcCC-----------------CCChhhHHHHHHHH
Q 036731          117 VRPDAFCEINIVAYGCLIDGLCKIGKLKN---ARELSQSL----TRAGL-----------------MPNVVTYNITIHAL  172 (259)
Q Consensus       117 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~----~~~~~-----------------~~~~~~~~~li~~~  172 (259)
                       .|      ...+|+.+..+|...||+..   +.+.+..+    ...|+                 -||..+   .+...
T Consensus        80 -ep------~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~illl  149 (1088)
T KOG4318|consen   80 -EP------LADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---AILLL  149 (1088)
T ss_pred             -CC------chhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---HHHHH
Confidence             23      34899999999999998754   33322222    12222                 122211   11111


Q ss_pred             HhcCChhHHHHHH----------------HHH-------------HhcCC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 036731          173 CNDEQMDKAHDLF----------------LDM-------------EVKGV-APNCVIFTTLMPSFIRKNETSKVIELLRS  222 (259)
Q Consensus       173 ~~~~~~~~a~~~~----------------~~~-------------~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (259)
                      ...|.++.+++++                +++             .+... .|++.+|..++.+-...|+.+.|..++.+
T Consensus       150 v~eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~e  229 (1088)
T KOG4318|consen  150 VLEGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYE  229 (1088)
T ss_pred             HHHHHHHHHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHH
Confidence            2222223222222                111             11111 47889999999999999999999999999


Q ss_pred             HhhCCCccchHHHHHHHH
Q 036731          223 MDKRNVMPYASILSIIVD  240 (259)
Q Consensus       223 ~~~~~~~~~~~~~~~l~~  240 (259)
                      |.+.|++.+..-|..++-
T Consensus       230 mke~gfpir~HyFwpLl~  247 (1088)
T KOG4318|consen  230 MKEKGFPIRAHYFWPLLL  247 (1088)
T ss_pred             HHHcCCCcccccchhhhh
Confidence            999998777665555543

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

Probab=99.04  E-value=2.8e-07  Score=72.46  Aligned_cols=231  Identities=10%  Similarity=-0.018  Sum_probs=120.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      ++.....-..-+-..+++.+..++.+...+. .++....+-.-|.++...|+..+-..+=.++.+. .+....+|-++.-
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~  320 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGC  320 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHH
Confidence            3444444455566677777777777777665 3555555655566667777766666666666665 3335667777777


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      -|...|..++|.+.|.+....+..-       ...|..+...|.-.|+.++|...+....+.= +-...-+--+.--|.+
T Consensus       321 YYl~i~k~seARry~SKat~lD~~f-------gpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~  392 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTLDPTF-------GPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMR  392 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCccc-------cHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHH
Confidence            6777777777777777665433221       2466666666666666666666665544320 0000011112222344


Q ss_pred             cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC------CCccchHHHHHHHHHHHHhccc
Q 036731          175 DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR------NVMPYASILSIIVDLLVKNEIS  248 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~  248 (259)
                      .++.+.|.++|.+.... .+-|+...+-+.-.....+.+.+|..+|+..+..      ....+..+++-|..+|.+.+..
T Consensus       393 t~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~  471 (611)
T KOG1173|consen  393 TNNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKY  471 (611)
T ss_pred             hccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhH
Confidence            45555555555544433 1223334444443334444455555544443310      0011334444444555555555


Q ss_pred             CCcchhhh
Q 036731          249 LNSIPQFN  256 (259)
Q Consensus       249 ~~a~~~~~  256 (259)
                      ++|+..|+
T Consensus       472 ~eAI~~~q  479 (611)
T KOG1173|consen  472 EEAIDYYQ  479 (611)
T ss_pred             HHHHHHHH
Confidence            44444443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.04  E-value=2.6e-07  Score=67.76  Aligned_cols=187  Identities=9%  Similarity=-0.048  Sum_probs=127.9

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc---hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCch--hh
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN---VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDV--VT   88 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~   88 (259)
                      ..+..+-.+...+.+.|+++.|...|+++.... +.+   ..++..+..++...|++++|...++++.+.......  .+
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            356778888899999999999999999987752 222   246677888999999999999999999876432111  24


Q ss_pred             HHHHHHHHHHc--------CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 036731           89 FNVIMDELCKN--------RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP  160 (259)
Q Consensus        89 ~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (259)
                      +..+..++...        |+.++|.+.++.+....  |+.     ...+..+......    ..      ...      
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~-----~~~~~a~~~~~~~----~~------~~~------  166 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNS-----EYAPDAKKRMDYL----RN------RLA------  166 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCC-----hhHHHHHHHHHHH----HH------HHH------
Confidence            55556666654        77899999999988653  321     1222222111110    00      000      


Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          161 NVVTYNITIHALCNDEQMDKAHDLFLDMEVKG--VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                        .....+...+...|++.+|...++...+..  .+.....+..+..++...|++++|..+++.+...
T Consensus       167 --~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       167 --GKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             --HHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence              011245566788899999999998887662  1223567888888999999999999988887754

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).

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

Probab=99.04  E-value=6e-07  Score=72.06  Aligned_cols=225  Identities=10%  Similarity=0.022  Sum_probs=107.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDEL   96 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   96 (259)
                      .||+.-.+.|.+.+.++-|..+|....+- .+-+...|......=-..|..++...++++.... .+-....|......+
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~  594 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEK  594 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHH
Confidence            34555555556666666666666555543 2334444444444444445555555555555444 122333344444444


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHH----------
Q 036731           97 CKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYN----------  166 (259)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----------  166 (259)
                      -..|+...|..++.+..+....       +...|..-+..-..+.+++.|..+|.+....  .|+...|.          
T Consensus       595 w~agdv~~ar~il~~af~~~pn-------seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld  665 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEANPN-------SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLD  665 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhCCC-------cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhh
Confidence            4445555555555444443211       2244444444444444444444444444332  23444444          


Q ss_pred             ------------------------HHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 036731          167 ------------------------ITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRS  222 (259)
Q Consensus       167 ------------------------~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (259)
                                              .+.+.+.+.++.+.|...|..-.+. ++-....|-.|...-.+.|.+-.|..++++
T Consensus       666 ~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildr  744 (913)
T KOG0495|consen  666 NVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDR  744 (913)
T ss_pred             hHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHH
Confidence                                    4444444444444444444333322 122233444444444555566666666666


Q ss_pred             HhhCCCccchHHHHHHHHHHHHhcccCCcchh
Q 036731          223 MDKRNVMPYASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       223 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      .+-++ +-+...|...+++=.+.|+.+.|..+
T Consensus       745 arlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~l  775 (913)
T KOG0495|consen  745 ARLKN-PKNALLWLESIRMELRAGNKEQAELL  775 (913)
T ss_pred             HHhcC-CCcchhHHHHHHHHHHcCCHHHHHHH
Confidence            55544 23555666666666666666555443

>PLN02789 farnesyltranstransferase

Probab=99.03  E-value=1.1e-06  Score=66.89  Aligned_cols=217  Identities=12%  Similarity=0.043  Sum_probs=157.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcC-ChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN-DGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      .+++.+-..+...+..++|+.+..++++.. +-+..+|+..-.++...| ++++++..++++.+...+ +..+|+.-..+
T Consensus        38 ~a~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~  115 (320)
T PLN02789         38 EAMDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHH
Confidence            345556666777889999999999998763 334556666666666667 679999999999987544 66678776666


Q ss_pred             HHHcCCH--HHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 036731           96 LCKNRKM--DEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC  173 (259)
Q Consensus        96 ~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (259)
                      +.+.|..  ++++.+++++.+.+.+       +..+|+...-++...|+++++++.++++.+.++. +...|+.....+.
T Consensus       116 l~~l~~~~~~~el~~~~kal~~dpk-------Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~  187 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLDAK-------NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVIT  187 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhCcc-------cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHH
Confidence            6666653  6788888888875433       5689999999999999999999999999998765 6667777666555


Q ss_pred             hc---CCh----hHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc----CCHHHHHHHHHHHhhCCCccchHHHHHHHHHH
Q 036731          174 ND---EQM----DKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRK----NETSKVIELLRSMDKRNVMPYASILSIIVDLL  242 (259)
Q Consensus       174 ~~---~~~----~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  242 (259)
                      +.   |..    ++......++.... +-|...|+.+...+...    +...+|.+.+.+..+.+ ..+...+..+++.|
T Consensus       188 ~~~~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~  265 (320)
T PLN02789        188 RSPLLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLL  265 (320)
T ss_pred             hccccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHH
Confidence            44   222    45666666666552 34566787777777663    34566888888877654 34667888899998


Q ss_pred             HHh
Q 036731          243 VKN  245 (259)
Q Consensus       243 ~~~  245 (259)
                      +..
T Consensus       266 ~~~  268 (320)
T PLN02789        266 CEG  268 (320)
T ss_pred             Hhh
Confidence            864

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.02  E-value=4.3e-07  Score=66.64  Aligned_cols=186  Identities=12%  Similarity=-0.051  Sum_probs=128.6

Q ss_pred             CchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCC-C-chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchh
Q 036731           49 PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ-S-DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEIN  126 (259)
Q Consensus        49 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  126 (259)
                      .....+..+...+...|+++.|...++++...... | ...++..+..++...|++++|...++++.+.......    -
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~----~  106 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPD----A  106 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCc----h
Confidence            34567777888899999999999999999876322 1 1246677889999999999999999999875322111    1


Q ss_pred             HHHHHHHHHHHHhc--------CChHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcH
Q 036731          127 IVAYGCLIDGLCKI--------GKLKNARELSQSLTRAGLMPNVV-TYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNC  197 (259)
Q Consensus       127 ~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~  197 (259)
                      ..++..+..++...        |++++|...++.+.+..  |+.. .+..+.... .   ...      ..        .
T Consensus       107 ~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~-~---~~~------~~--------~  166 (235)
T TIGR03302       107 DYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMD-Y---LRN------RL--------A  166 (235)
T ss_pred             HHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHH-H---HHH------HH--------H
Confidence            12455556666554        77889999999988763  3332 222221110 0   000      00        0


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC--ccchHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          198 VIFTTLMPSFIRKNETSKVIELLRSMDKRNV--MPYASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       198 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      .....+...+.+.|++++|...+++..+...  +.....+..+..++.+.|+.++|.++++.+
T Consensus       167 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l  229 (235)
T TIGR03302       167 GKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVL  229 (235)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            1122556778899999999999999887532  224578889999999999999999988764

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PF12854 PPR_1: PPR repeat

Probab=99.02  E-value=5e-10  Score=54.67  Aligned_cols=32  Identities=53%  Similarity=0.810  Sum_probs=18.8

Q ss_pred             CCCCchHhHHHHHHHHhhcCChhHHHHHHHHH
Q 036731           46 NINPNVVTYNSLIHGFCYANDGNEAEYLFIEM   77 (259)
Q Consensus        46 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~   77 (259)
                      |+.||..||++||.+|++.|++++|.++|++|
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            45555666666666666666666666555554

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

Probab=99.01  E-value=7.1e-07  Score=77.12  Aligned_cols=226  Identities=12%  Similarity=0.057  Sum_probs=177.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhC-CCCCc---hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDE-NINPN---VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFN   90 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   90 (259)
                      +...|-..|....+.++.++|.++.++.+.. ++.-.   ...|.++++.-..-|.-+...++|+++.+.. . .-..|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc-d-~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC-D-AYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc-c-hHHHHH
Confidence            4567888899999999999999999998765 22222   3467777777777788888999999998762 2 345688


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CChhhHHHHH
Q 036731           91 VIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM-PNVVTYNITI  169 (259)
Q Consensus        91 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li  169 (259)
                      .|...|.+.+..++|.++++.|.+.-- .      ....|...+..+.+.++-+.|..++.+..+.=.+ -........+
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KKF~-q------~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfA 1607 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKKFG-Q------TRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFA 1607 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHhc-c------hhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHH
Confidence            899999999999999999999986522 1      3489999999999999999999999998775211 1233555666


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccc--hHHHHHHHHHHHHhcc
Q 036731          170 HALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPY--ASILSIIVDLLVKNEI  247 (259)
Q Consensus       170 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~  247 (259)
                      ..-.+.|+.+.+..+|+..... .+--...|+.+++.-.++|+.+.++.+|++....++.|-  -..|...++.=...|+
T Consensus      1608 qLEFk~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gd 1686 (1710)
T KOG1070|consen 1608 QLEFKYGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGD 1686 (1710)
T ss_pred             HHHhhcCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCc
Confidence            7777899999999999999876 233567899999999999999999999999999887763  3356666665555566


Q ss_pred             cCC
Q 036731          248 SLN  250 (259)
Q Consensus       248 ~~~  250 (259)
                      -+.
T Consensus      1687 e~~ 1689 (1710)
T KOG1070|consen 1687 EKN 1689 (1710)
T ss_pred             hhh
Confidence            543

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

Probab=99.00  E-value=1.4e-07  Score=78.50  Aligned_cols=202  Identities=11%  Similarity=0.086  Sum_probs=146.7

Q ss_pred             cCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcC-CCCchhhHHHHHHHHHH---------
Q 036731           29 EGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG-LQSDVVTFNVIMDELCK---------   98 (259)
Q Consensus        29 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~---------   98 (259)
                      .+...+|...+....... ..++..+..+...+.+...+..|.+-|....+.- ..+|..+...|.+.|.+         
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 KNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNP  621 (1018)
T ss_pred             ccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccCh
Confidence            355566666666665432 3355556666667777777777777666554332 22466666666665553         


Q ss_pred             ---cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 036731           99 ---NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND  175 (259)
Q Consensus        99 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  175 (259)
                         .+..++|+++|.++.+....       |...-|-+.-+++..|++..|..+|.+..+.... ...+|-.+.++|...
T Consensus       622 ek~kk~~~KAlq~y~kvL~~dpk-------N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~-~~dv~lNlah~~~e~  693 (1018)
T KOG2002|consen  622 EKEKKHQEKALQLYGKVLRNDPK-------NMYAANGIGIVLAEKGRFSEARDIFSQVREATSD-FEDVWLNLAHCYVEQ  693 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCcc-------hhhhccchhhhhhhccCchHHHHHHHHHHHHHhh-CCceeeeHHHHHHHH
Confidence               23567889999888875432       5677788888899999999999999999987542 566899999999999


Q ss_pred             CChhHHHHHHHHHHhc-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHH
Q 036731          176 EQMDKAHDLFLDMEVK-GVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIV  239 (259)
Q Consensus       176 ~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  239 (259)
                      |++..|.++|+..... .-.-+..+...|.+++.+.|.+.+|.+.+.......+.-+...|+..+
T Consensus       694 ~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~  758 (1018)
T KOG2002|consen  694 GQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLAL  758 (1018)
T ss_pred             HHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHH
Confidence            9999999999987654 445578889999999999999999999998887665444445555433

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

Probab=98.98  E-value=1.4e-06  Score=70.01  Aligned_cols=229  Identities=13%  Similarity=0.062  Sum_probs=161.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      ....|-.....+-..|++..|..++....+.. +-+...|-.-+..-.....++.|..+|.+....  .|+...|..-+.
T Consensus       583 ae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~  659 (913)
T KOG0495|consen  583 AEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSAN  659 (913)
T ss_pred             chhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhH
Confidence            33445445555566677777777776666553 225566666666666777777777777766653  456666666666


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      .---.+..++|.+++++..+.  .|+     -...|..+.+.+-+.++.+.|...|..-.+. ++.....|-.+...-.+
T Consensus       660 ~er~ld~~eeA~rllEe~lk~--fp~-----f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk  731 (913)
T KOG0495|consen  660 LERYLDNVEEALRLLEEALKS--FPD-----FHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEK  731 (913)
T ss_pred             HHHHhhhHHHHHHHHHHHHHh--CCc-----hHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHH
Confidence            656667777777777776654  232     3467777888888888888888887765554 34456678888888888


Q ss_pred             cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchh
Q 036731          175 DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      .|.+-.|..++++.+-.+ +-+...|-..|+.-.+.|..+.|..++.+.+.. ++.+...|..-|...-+.++-..+...
T Consensus       732 ~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DA  809 (913)
T KOG0495|consen  732 DGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDA  809 (913)
T ss_pred             hcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHH
Confidence            999999999999988774 457788999999999999999999999998875 455677777777766666655544444


Q ss_pred             hh
Q 036731          255 FN  256 (259)
Q Consensus       255 ~~  256 (259)
                      ++
T Consensus       810 Lk  811 (913)
T KOG0495|consen  810 LK  811 (913)
T ss_pred             HH
Confidence            43

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

Probab=98.98  E-value=2.8e-07  Score=76.08  Aligned_cols=223  Identities=16%  Similarity=0.141  Sum_probs=150.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhC-CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCC-------------------
Q 036731           23 IDGLCKEGFVDKAKELFLQMKDE-NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGL-------------------   82 (259)
Q Consensus        23 l~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-------------------   82 (259)
                      ++.+...++-+.|.+.++..... +-..+...++.++..+.+...++.|.....++.....                   
T Consensus       287 ~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~  366 (895)
T KOG2076|consen  287 AHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNA  366 (895)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccc
Confidence            34455555556666666665542 2234555666677777777777777766666654111                   


Q ss_pred             --------CCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 036731           83 --------QSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLT  154 (259)
Q Consensus        83 --------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  154 (259)
                              .++..+ .-++-++.+....+....+..-+.+....++.    +...|.-+..++...|++.+|+.++..+.
T Consensus       367 ~~~~~~~~s~~l~v-~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d----~~dL~~d~a~al~~~~~~~~Al~~l~~i~  441 (895)
T KOG2076|consen  367 LCEVGKELSYDLRV-IRLMICLVHLKERELLEALLHFLVEDNVWVSD----DVDLYLDLADALTNIGKYKEALRLLSPIT  441 (895)
T ss_pred             cccCCCCCCccchh-HhHhhhhhcccccchHHHHHHHHHHhcCChhh----hHHHHHHHHHHHHhcccHHHHHHHHHHHh
Confidence                    111122 11222333334444444444444455444443    77899999999999999999999999998


Q ss_pred             HcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--------C
Q 036731          155 RAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK--------R  226 (259)
Q Consensus       155 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------~  226 (259)
                      ....--+...|-.+.++|...|.++.|.+.|+..+... +-+...-..|...+.+.|+.++|.+.+..+..        .
T Consensus       442 ~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~  520 (895)
T KOG2076|consen  442 NREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEAC  520 (895)
T ss_pred             cCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhc
Confidence            87555567789999999999999999999999998762 33445566777888899999999999998653        2


Q ss_pred             CCccchHHHHHHHHHHHHhcccCCc
Q 036731          227 NVMPYASILSIIVDLLVKNEISLNS  251 (259)
Q Consensus       227 ~~~~~~~~~~~l~~~~~~~g~~~~a  251 (259)
                      ...|.........+.+.+.|+.++=
T Consensus       521 a~~~e~ri~~~r~d~l~~~gk~E~f  545 (895)
T KOG2076|consen  521 AWEPERRILAHRCDILFQVGKREEF  545 (895)
T ss_pred             cccHHHHHHHHHHHHHHHhhhHHHH
Confidence            3456666666777778888877653

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

Probab=98.98  E-value=4.3e-08  Score=79.07  Aligned_cols=203  Identities=14%  Similarity=0.139  Sum_probs=120.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH---
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK---   98 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---   98 (259)
                      +...+...|-...|..+|++..         .|...|.+|...|+..+|..+..+..+.  +|++..|..+.+....   
T Consensus       404 laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~  472 (777)
T KOG1128|consen  404 LAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSL  472 (777)
T ss_pred             HHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHH
Confidence            3344444555555555554432         3444445555555555555554444442  4444444444444333   


Q ss_pred             -------------------------cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 036731           99 -------------------------NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSL  153 (259)
Q Consensus        99 -------------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  153 (259)
                                               .++++++.+.|+.-.+.+.       .-..+|-.+..+..+.++++.|.+.|...
T Consensus       473 yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~np-------lq~~~wf~~G~~ALqlek~q~av~aF~rc  545 (777)
T KOG1128|consen  473 YEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEINP-------LQLGTWFGLGCAALQLEKEQAAVKAFHRC  545 (777)
T ss_pred             HHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcCc-------cchhHHHhccHHHHHHhhhHHHHHHHHHH
Confidence                                     4455555555544333211       12367777777777888888888888877


Q ss_pred             HHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC-Cccch
Q 036731          154 TRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN-VMPYA  232 (259)
Q Consensus       154 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~  232 (259)
                      ..... -+...|+.+-.+|.+.++..+|...+.+..+.+ .-+...|...+......|.+++|.+.+.++.+.. ...+.
T Consensus       546 vtL~P-d~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~  623 (777)
T KOG1128|consen  546 VTLEP-DNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDD  623 (777)
T ss_pred             hhcCC-CchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccc
Confidence            66532 245578888888888888888888888887776 4456677777777788888888888888765421 12255


Q ss_pred             HHHHHHHHHHHH
Q 036731          233 SILSIIVDLLVK  244 (259)
Q Consensus       233 ~~~~~l~~~~~~  244 (259)
                      .+...++....+
T Consensus       624 ~vl~~iv~~~~~  635 (777)
T KOG1128|consen  624 EVLLIIVRTVLE  635 (777)
T ss_pred             hhhHHHHHHHHh
Confidence            555555554443

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

Probab=98.96  E-value=8.6e-07  Score=69.26  Aligned_cols=158  Identities=12%  Similarity=0.042  Sum_probs=98.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHh----hcCChhHHHHHHHHHHHcCCCCc-hhhHHHHHHHHH
Q 036731           23 IDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFC----YANDGNEAEYLFIEMMDRGLQSD-VVTFNVIMDELC   97 (259)
Q Consensus        23 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~----~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~   97 (259)
                      ...+...|++++|.+++++..+.. +.+...+.. ...+.    ..+....+.+.+..  .....|+ ......+...+.
T Consensus        50 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~  125 (355)
T cd05804          50 ALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLE  125 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHH
Confidence            344566788888888888877652 333334332 21222    23444444444443  1112222 333445566777


Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CCh--hhHHHHHHHHHh
Q 036731           98 KNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM-PNV--VTYNITIHALCN  174 (259)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~--~~~~~li~~~~~  174 (259)
                      ..|++++|...+++..+..  |+     +...+..+..++...|++++|...+++....... |+.  ..|..+...+..
T Consensus       126 ~~G~~~~A~~~~~~al~~~--p~-----~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~  198 (355)
T cd05804         126 EAGQYDRAEEAARRALELN--PD-----DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLE  198 (355)
T ss_pred             HcCCHHHHHHHHHHHHhhC--CC-----CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHH
Confidence            8888888888888887753  33     3467777888888888888888888887764321 222  234567777888


Q ss_pred             cCChhHHHHHHHHHHhc
Q 036731          175 DEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~  191 (259)
                      .|++++|..++++....
T Consensus       199 ~G~~~~A~~~~~~~~~~  215 (355)
T cd05804         199 RGDYEAALAIYDTHIAP  215 (355)
T ss_pred             CCCHHHHHHHHHHHhcc
Confidence            88888888888887543

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.

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

Probab=98.96  E-value=6e-07  Score=70.78  Aligned_cols=224  Identities=13%  Similarity=0.058  Sum_probs=162.0

Q ss_pred             HHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHH
Q 036731           26 LCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEA  105 (259)
Q Consensus        26 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  105 (259)
                      +.+.|++.+|.-.|+...+.. +-+...|..|.......++-..|+..+++..+.... |......|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHHH
Confidence            457788888888888877663 446778888888888888777788888877776322 455666666667666666666


Q ss_pred             HHHHHHHHhCCCC---------CCC------c---------------------cchhHHHHHHHHHHHHhcCChHHHHHH
Q 036731          106 TRLLDLMIQGGVR---------PDA------F---------------------CEINIVAYGCLIDGLCKIGKLKNAREL  149 (259)
Q Consensus       106 ~~~~~~~~~~~~~---------~~~------~---------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~  149 (259)
                      ...++.=.....+         +..      +                     ..+|+.++..|.-.|.-.|++++|.+.
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            6666543221100         000      0                     225778899999999999999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcH-HHHHHHHHHHHhcCCHHHHHHHHHHHhh---
Q 036731          150 SQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNC-VIFTTLMPSFIRKNETSKVIELLRSMDK---  225 (259)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~---  225 (259)
                      |+....... -|..+||.|...+....+.++|...|++.++.  +|+. .+...|.-+|...|.+++|.+.|-..+.   
T Consensus       453 f~~AL~v~P-nd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~  529 (579)
T KOG1125|consen  453 FEAALQVKP-NDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQR  529 (579)
T ss_pred             HHHHHhcCC-chHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhh
Confidence            999988643 26779999999999999999999999999986  6664 4555677789999999999998877542   


Q ss_pred             C------CCccchHHHHHHHHHHHHhcccCCcchh
Q 036731          226 R------NVMPYASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       226 ~------~~~~~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      .      ...++..+|..|-.++.-.++.+-+.+.
T Consensus       530 ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  530 KSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             cccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            2      2233456788777777777777644443

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

Probab=98.94  E-value=1.1e-06  Score=62.31  Aligned_cols=119  Identities=11%  Similarity=0.077  Sum_probs=74.8

Q ss_pred             cCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHH-HhcCC
Q 036731           64 ANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGL-CKIGK  142 (259)
Q Consensus        64 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~  142 (259)
                      .++.+++...++...+.. +.+...|..+...|...|++++|...|++..+..  |+     +...+..+..++ ...|+
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~--P~-----~~~~~~~lA~aL~~~~g~  123 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR--GE-----NAELYAALATVLYYQAGQ  123 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHhcCC
Confidence            455566666666655553 3356667777777777777777777777666543  33     446666666653 45555


Q ss_pred             --hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          143 --LKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       143 --~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                        .++|..++++..+.+.. +..++..+...+...|++++|...|+++.+.
T Consensus       124 ~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        124 HMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             CCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence              36777777777666433 5556666666666777777777777776665

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

Probab=98.92  E-value=7e-06  Score=64.17  Aligned_cols=201  Identities=12%  Similarity=0.043  Sum_probs=136.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCC-CCch-HhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENI-NPNV-VTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      +..|..+...+...|+.+.+.+.+....+... .++. .........+...|++++|...+++..+.. +.+...+.. .
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~   83 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-H   83 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-h
Confidence            45677777778788888887777776654421 1222 122223345678899999999999988763 224444442 2


Q ss_pred             HHHHH----cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHH
Q 036731           94 DELCK----NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITI  169 (259)
Q Consensus        94 ~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  169 (259)
                      ..+..    .+..+.+.+.+..  .....|.     .......+...+...|++++|...+++..+.. +.+...+..+.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~-----~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la  155 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPL--WAPENPD-----YWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVA  155 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhc--cCcCCCC-----cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHH
Confidence            23333    3444555555443  1112222     33455566778899999999999999999875 33566778888


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCC-CCcH--HHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          170 HALCNDEQMDKAHDLFLDMEVKGV-APNC--VIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       170 ~~~~~~~~~~~a~~~~~~~~~~~~-~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      .++...|++++|...+++.....- .|+.  ..|..+...+...|++++|..++++....
T Consensus       156 ~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~  215 (355)
T cd05804         156 HVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAP  215 (355)
T ss_pred             HHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc
Confidence            899999999999999999886521 2232  34567888899999999999999998644

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.

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

Probab=98.90  E-value=6.2e-07  Score=77.46  Aligned_cols=209  Identities=9%  Similarity=0.051  Sum_probs=166.1

Q ss_pred             HHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc-----hhhHHHHHHHHHHcCCHHHHHHH
Q 036731           34 KAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD-----VVTFNVIMDELCKNRKMDEATRL  108 (259)
Q Consensus        34 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~  108 (259)
                      .|.++-+..+.+  +-+...|-..|......++.+.|.++.++++.. +.+.     ...|.++++.-..-|.-+...++
T Consensus      1443 saeDferlvrss--PNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kV 1519 (1710)
T KOG1070|consen 1443 SAEDFERLVRSS--PNSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKV 1519 (1710)
T ss_pred             CHHHHHHHHhcC--CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHH
Confidence            444444444432  334667888899999999999999999998864 3222     24677788877778888889999


Q ss_pred             HHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 036731          109 LDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDM  188 (259)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  188 (259)
                      |+++.+.- .|       ..+|..|...|.+.+.+++|-++++.|.+. +.-....|...+..+.++++-+.|..++.+.
T Consensus      1520 FeRAcqyc-d~-------~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rA 1590 (1710)
T KOG1070|consen 1520 FERACQYC-DA-------YTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRA 1590 (1710)
T ss_pred             HHHHHHhc-ch-------HHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            99998753 22       378999999999999999999999999876 3347789999999999999999999999998


Q ss_pred             HhcCCCCc---HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          189 EVKGVAPN---CVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       189 ~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      .+.  -|.   .....-.+..-.+.|+.+.+..+|+...... +--...|+.+++.=.++|+.+.+..+|+|
T Consensus      1591 L~~--lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeR 1659 (1710)
T KOG1070|consen 1591 LKS--LPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFER 1659 (1710)
T ss_pred             Hhh--cchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHH
Confidence            876  333   3445555666678999999999999988663 33567999999999999999999988876

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

Probab=98.89  E-value=2.4e-06  Score=60.67  Aligned_cols=163  Identities=12%  Similarity=0.097  Sum_probs=120.1

Q ss_pred             HHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHH
Q 036731           58 IHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGL  137 (259)
Q Consensus        58 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  137 (259)
                      +..|...|+++.+....+.+...    . .       .+...++.+++...+++..+.  .|+     +...|..+...|
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~----~-~-------~~~~~~~~~~~i~~l~~~L~~--~P~-----~~~~w~~Lg~~~   83 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADP----L-H-------QFASQQTPEAQLQALQDKIRA--NPQ-----NSEQWALLGEYY   83 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCc----c-c-------cccCchhHHHHHHHHHHHHHH--CCC-----CHHHHHHHHHHH
Confidence            35678888888875554322211    1 0       112256677888888777765  344     678999999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH-HhcCC--hhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH
Q 036731          138 CKIGKLKNARELSQSLTRAGLMPNVVTYNITIHAL-CNDEQ--MDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETS  214 (259)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~~~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  214 (259)
                      ...|++++|...|++..+.... +...+..+..++ ...|+  .++|.+++++..+.+ +-+...+..+...+.+.|+++
T Consensus        84 ~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~  161 (198)
T PRK10370         84 LWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYA  161 (198)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHH
Confidence            9999999999999999987533 677777777764 67777  599999999999884 336778888899999999999


Q ss_pred             HHHHHHHHHhhCCCccchHHHHHHHHHHH
Q 036731          215 KVIELLRSMDKRNVMPYASILSIIVDLLV  243 (259)
Q Consensus       215 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  243 (259)
                      +|...|+++.+.. +|+..-+..+ +...
T Consensus       162 ~Ai~~~~~aL~l~-~~~~~r~~~i-~~i~  188 (198)
T PRK10370        162 QAIELWQKVLDLN-SPRVNRTQLV-ESIN  188 (198)
T ss_pred             HHHHHHHHHHhhC-CCCccHHHHH-HHHH
Confidence            9999999998874 4455444433 5433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.89  E-value=6.7e-06  Score=68.94  Aligned_cols=132  Identities=12%  Similarity=0.097  Sum_probs=74.0

Q ss_pred             chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCC-chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHH
Q 036731           50 NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQS-DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIV  128 (259)
Q Consensus        50 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  128 (259)
                      +...+..|.....+.|++++|..+++...+.  .| +......+...+.+.+++++|+..+++.....  |+     +..
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~--p~-----~~~  155 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG--SS-----SAR  155 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC--CC-----CHH
Confidence            3555555555556666666666666666554  22 33444555566666666666666666655542  22     345


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      ....+..++.+.|++++|..+|+++...+ +-+..++..+..++...|+.++|...|+...+.
T Consensus       156 ~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        156 EILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            55555566666666666666666665532 123455555566666666666666666665544

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

Probab=98.88  E-value=1.7e-06  Score=67.07  Aligned_cols=153  Identities=10%  Similarity=0.069  Sum_probs=100.3

Q ss_pred             CCCccccccc--ccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHH
Q 036731            2 ANGNREFGVV--CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMD   79 (259)
Q Consensus         2 ~~a~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~   79 (259)
                      +.|+.+|++=  .+|+..+|++.|..-.+-+.++.|..+|++..--  .|++.+|-...+.=.+.|....|..+|+...+
T Consensus       158 ~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie  235 (677)
T KOG1915|consen  158 AGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIE  235 (677)
T ss_pred             HHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            4566677663  5789999999999999999999999999888754  58888888888888888888888888887765


Q ss_pred             c-CC-CCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCc-----------------------------------
Q 036731           80 R-GL-QSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAF-----------------------------------  122 (259)
Q Consensus        80 ~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----------------------------------  122 (259)
                      . |- ..+...+.+....=.++..++.|.-+|.-..+.-.+....                                   
T Consensus       236 ~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v  315 (677)
T KOG1915|consen  236 FLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEV  315 (677)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHH
Confidence            3 10 1112233333333334455555555555444321110000                                   


Q ss_pred             --cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          123 --CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       123 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                        .+.|-.+|--.++.-...|+.+...++|+.....
T Consensus       316 ~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan  351 (677)
T KOG1915|consen  316 SKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN  351 (677)
T ss_pred             HhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc
Confidence              2335567777777777778888888887777654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.86  E-value=1.9e-07  Score=62.77  Aligned_cols=108  Identities=10%  Similarity=-0.122  Sum_probs=92.5

Q ss_pred             cccccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCch
Q 036731            7 EFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDV   86 (259)
Q Consensus         7 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~   86 (259)
                      .|+..++-++..+......+.+.|++++|...|+...... +.+...|..+..++...|++++|...|+...... +.+.
T Consensus        15 ~~~~al~~~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~   92 (144)
T PRK15359         15 ILKQLLSVDPETVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHP   92 (144)
T ss_pred             HHHHHHHcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCc
Confidence            4455555566667778889999999999999999998774 4578889999999999999999999999999874 3478


Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 036731           87 VTFNVIMDELCKNRKMDEATRLLDLMIQGG  116 (259)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  116 (259)
                      ..+..+..++...|++++|...|+......
T Consensus        93 ~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359         93 EPVYQTGVCLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            889999999999999999999999998753

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

Probab=98.86  E-value=2.7e-06  Score=64.87  Aligned_cols=229  Identities=13%  Similarity=0.072  Sum_probs=114.8

Q ss_pred             cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchH-hHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHH
Q 036731           13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVV-TYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNV   91 (259)
Q Consensus        13 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   91 (259)
                      +-|+.....+...+...|+.++|+..|+.....  .|... ........+.+.|+++....+...+.... +.+...|..
T Consensus       229 r~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV  305 (564)
T KOG1174|consen  229 RCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFV  305 (564)
T ss_pred             CccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhh
Confidence            345666666777777777777777777766543  22211 11111112234444444444444333221 111222222


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 036731           92 IMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHA  171 (259)
Q Consensus        92 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  171 (259)
                      -+.......+++.|+.+-++.++.+..       ++..+..-...+...+++++|.-.|+.....- +-+...|.-|+.+
T Consensus       306 ~~~~l~~~K~~~rAL~~~eK~I~~~~r-------~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hs  377 (564)
T KOG1174|consen  306 HAQLLYDEKKFERALNFVEKCIDSEPR-------NHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHS  377 (564)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHhccCcc-------cchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHH
Confidence            222222333344444444433332111       22233333333444444444444444444321 1133444445555


Q ss_pred             HHhcCChhH------------------------------------HHHHHHHHHhcCCCCcH-HHHHHHHHHHHhcCCHH
Q 036731          172 LCNDEQMDK------------------------------------AHDLFLDMEVKGVAPNC-VIFTTLMPSFIRKNETS  214 (259)
Q Consensus       172 ~~~~~~~~~------------------------------------a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~  214 (259)
                      |...|.+.+                                    |..++++-...  .|+. ...+.+...+...|..+
T Consensus       378 YLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~  455 (564)
T KOG1174|consen  378 YLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTK  455 (564)
T ss_pred             HHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccc
Confidence            444444444                                    44444443332  3432 33455667777888888


Q ss_pred             HHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          215 KVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       215 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                      .+..+++.....  .||....+.+.+.+...+.+.+|++.|.
T Consensus       456 D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~  495 (564)
T KOG1174|consen  456 DIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYY  495 (564)
T ss_pred             hHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            888888877654  6788888888888888888888887764

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

Probab=98.85  E-value=2.2e-06  Score=61.51  Aligned_cols=147  Identities=14%  Similarity=0.152  Sum_probs=105.8

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHH
Q 036731           87 VTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYN  166 (259)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  166 (259)
                      .....-...|...|++++|++......            +......=+.++.+..+.+.|.+.+++|.+..   +..|.+
T Consensus       109 i~~l~aa~i~~~~~~~deAl~~~~~~~------------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLt  173 (299)
T KOG3081|consen  109 IDLLLAAIIYMHDGDFDEALKALHLGE------------NLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLT  173 (299)
T ss_pred             HHHHHhhHHhhcCCChHHHHHHHhccc------------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHH
Confidence            333344566888899999988876521            22444455666777788889999999988753   566777


Q ss_pred             HHHHHHHh----cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHH
Q 036731          167 ITIHALCN----DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLL  242 (259)
Q Consensus       167 ~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  242 (259)
                      .|..++.+    .+.+..|..+|++|.++ ..|++.+.+-...++...|++++|..++++.+.+... +..+..-++.+-
T Consensus       174 QLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a  251 (299)
T KOG3081|consen  174 QLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLA  251 (299)
T ss_pred             HHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHH
Confidence            67666654    45688899999998874 5788888888888888999999999999998877533 556666666666


Q ss_pred             HHhcccCC
Q 036731          243 VKNEISLN  250 (259)
Q Consensus       243 ~~~g~~~~  250 (259)
                      ...|...+
T Consensus       252 ~~~Gkd~~  259 (299)
T KOG3081|consen  252 LHLGKDAE  259 (299)
T ss_pred             HHhCCChH
Confidence            66665543

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.85  E-value=5.1e-06  Score=59.48  Aligned_cols=160  Identities=13%  Similarity=0.081  Sum_probs=128.2

Q ss_pred             HHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHH
Q 036731           55 NSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLI  134 (259)
Q Consensus        55 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  134 (259)
                      ..+-..+...|+-+....+....... .+.+....+.++....+.|++..|...+.+....  .|+     |..+|+.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l--~p~-----d~~~~~~lg  141 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL--APT-----DWEAWNLLG  141 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc--CCC-----ChhhhhHHH
Confidence            55666777788888888877765543 2346667777899999999999999999988764  333     679999999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH
Q 036731          135 DGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETS  214 (259)
Q Consensus       135 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  214 (259)
                      -+|.+.|+.+.|..-|.+..+.... +...++.+.-.+.-.|+++.|..++......+ .-|..+-..+.......|+++
T Consensus       142 aaldq~Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~  219 (257)
T COG5010         142 AALDQLGRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFR  219 (257)
T ss_pred             HHHHHccChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChH
Confidence            9999999999999999998886432 56678888888889999999999999988774 336777788888888999999


Q ss_pred             HHHHHHHHHh
Q 036731          215 KVIELLRSMD  224 (259)
Q Consensus       215 ~a~~~~~~~~  224 (259)
                      +|..+...-.
T Consensus       220 ~A~~i~~~e~  229 (257)
T COG5010         220 EAEDIAVQEL  229 (257)
T ss_pred             HHHhhccccc
Confidence            9998876544

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

Probab=98.81  E-value=1.3e-05  Score=64.96  Aligned_cols=130  Identities=15%  Similarity=0.148  Sum_probs=104.5

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHH
Q 036731           88 TFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNI  167 (259)
Q Consensus        88 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  167 (259)
                      ++..+...|...|++++|++++++.++.  .|+     .+..|..-.+.+-..|++++|...++.....+.. |...=+.
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt-----~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK  267 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIEH--TPT-----LVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSK  267 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCC-----cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHH
Confidence            4455677788999999999999998886  444     4689999999999999999999999999988654 7777788


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHH--------HHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          168 TIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIF--------TTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       168 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~--------~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      ....+.+.|+.++|.+++......+..|-...+        .....+|.+.|++..|.+.|..+.+
T Consensus       268 ~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  268 CAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            888999999999999999998877654432221        2345688899999998887766543

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 [], [].

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

Probab=98.81  E-value=7.6e-06  Score=69.64  Aligned_cols=216  Identities=10%  Similarity=0.057  Sum_probs=146.4

Q ss_pred             cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCch-HhHHHHHHHHhhcCChhHHHHHHHHHHHcC----------
Q 036731           13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNV-VTYNSLIHGFCYANDGNEAEYLFIEMMDRG----------   81 (259)
Q Consensus        13 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----------   81 (259)
                      ..+...|..|+..+...+++++|.++.+...+.  .|+. ..|..+...+.+.++..++..+  .+...-          
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve  103 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIVE  103 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHHH
Confidence            457788999999999999999999999977765  3443 3344444456666666655544  332220          


Q ss_pred             --------CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 036731           82 --------LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSL  153 (259)
Q Consensus        82 --------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  153 (259)
                              ..-+...+..+..+|-+.|+.++|..+++++.+..  |+     ++.+.|.+...|... ++++|.+++.+.
T Consensus       104 ~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D--~~-----n~~aLNn~AY~~ae~-dL~KA~~m~~KA  175 (906)
T PRK14720        104 HICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD--RD-----NPEIVKKLATSYEEE-DKEKAITYLKKA  175 (906)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--cc-----cHHHHHHHHHHHHHh-hHHHHHHHHHHH
Confidence                    11123567778888999999999999999999876  44     679999999999999 999999999887


Q ss_pred             HHcCCCCChhhHHHHHHHHH-----hcCChhHHHHHHHHHHhc-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          154 TRAGLMPNVVTYNITIHALC-----NDEQMDKAHDLFLDMEVK-GVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       154 ~~~~~~~~~~~~~~li~~~~-----~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      ...-+  +..-|+.+...+.     ...+.+.-..+.+.+... |..--..++..+...|...++++++..+++.+++..
T Consensus       176 V~~~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~  253 (906)
T PRK14720        176 IYRFI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHD  253 (906)
T ss_pred             HHHHH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC
Confidence            76411  1112222222111     122333444444444433 333344566667788888999999999999999875


Q ss_pred             CccchHHHHHHHHHHH
Q 036731          228 VMPYASILSIIVDLLV  243 (259)
Q Consensus       228 ~~~~~~~~~~l~~~~~  243 (259)
                      .. +.....-++.+|.
T Consensus       254 ~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        254 NK-NNKAREELIRFYK  268 (906)
T ss_pred             Cc-chhhHHHHHHHHH
Confidence            33 5666667777775

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

Probab=98.79  E-value=6.4e-07  Score=72.53  Aligned_cols=183  Identities=13%  Similarity=0.083  Sum_probs=138.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhc----------------------------CCh
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYA----------------------------NDG   67 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----------------------------~~~   67 (259)
                      ...|..+|.+|...|+-.+|..+..+..++  +|+...|..+.+.....                            +++
T Consensus       424 lemw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~f  501 (777)
T KOG1128|consen  424 LEMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDF  501 (777)
T ss_pred             HHHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhH
Confidence            456888999999999999999999888774  77888888777554333                            445


Q ss_pred             hHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHH
Q 036731           68 NEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNAR  147 (259)
Q Consensus        68 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  147 (259)
                      +++.+.|+.-.+.+ +.-..+|-.+.-+..+.++++.|.+.|......  .|+     +...||.+-.+|.+.++-.+|.
T Consensus       502 s~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL--~Pd-----~~eaWnNls~ayi~~~~k~ra~  573 (777)
T KOG1128|consen  502 SEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL--EPD-----NAEAWNNLSTAYIRLKKKKRAF  573 (777)
T ss_pred             HHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc--CCC-----chhhhhhhhHHHHHHhhhHHHH
Confidence            55555555444432 224567777777888899999999999888764  555     4589999999999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHh
Q 036731          148 ELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG-VAPNCVIFTTLMPSFIR  209 (259)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~  209 (259)
                      ..+++..+.+ .-+...|...+....+.|.+++|.+.+.++.... ...|..+...++....+
T Consensus       574 ~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~iv~~~~~  635 (777)
T KOG1128|consen  574 RKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLIIVRTVLE  635 (777)
T ss_pred             HHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHHHHHHHHh
Confidence            9999999987 4467788888889999999999999999887542 12255555555554433

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.79  E-value=2e-06  Score=57.83  Aligned_cols=95  Identities=11%  Similarity=-0.113  Sum_probs=60.7

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHH
Q 036731           54 YNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCL  133 (259)
Q Consensus        54 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l  133 (259)
                      +..+...+...|++++|...|+...... +.+...|..+..++...|++++|...|++....+  |+     +...+..+
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~--p~-----~~~a~~~l   98 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD--AS-----HPEPVYQT   98 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CC-----CcHHHHHH
Confidence            4445556666677777777777666553 2255666666667777777777777777666542  32     34666666


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHc
Q 036731          134 IDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       134 ~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      ..++...|++++|...|+...+.
T Consensus        99 g~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         99 GVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh
Confidence            66777777777777777766654

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.78  E-value=3.3e-06  Score=70.75  Aligned_cols=136  Identities=12%  Similarity=0.074  Sum_probs=98.1

Q ss_pred             CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 036731           82 LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN  161 (259)
Q Consensus        82 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  161 (259)
                      ...+...+-.|.....+.|.+++|..+++...+.  .|+     +......+..++.+.+++++|...+++....... +
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd-----~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~  153 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPD-----SSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-S  153 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCC-----cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-C
Confidence            3445777777778888888888888888877764  454     4577777788888888888888888887776422 4


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          162 VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      ......+..++...|++++|..+|+++...+ +-+..++..+..++...|+.++|...|+...+.
T Consensus       154 ~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        154 AREILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4455666677777888888888888887642 233667777777777788888888888877654

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.78  E-value=3.7e-06  Score=60.20  Aligned_cols=160  Identities=13%  Similarity=0.022  Sum_probs=127.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHc
Q 036731           20 NTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKN   99 (259)
Q Consensus        20 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   99 (259)
                      ..+-..+.-.|+-+....+....... .+.|....+..+....+.|++..|...+.+.... -++|..+|+.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHc
Confidence            33445555566666666665554322 2345556677889999999999999999999876 466999999999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChh
Q 036731          100 RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMD  179 (259)
Q Consensus       100 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  179 (259)
                      |+.+.|..-|.+..+....       +....+.+.-.+.-.|+.+.|..++......+.. |..+-..+.......|+++
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~-------~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~  219 (257)
T COG5010         148 GRFDEARRAYRQALELAPN-------EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFR  219 (257)
T ss_pred             cChhHHHHHHHHHHHhccC-------CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChH
Confidence            9999999999998875332       3489999999999999999999999998887543 7778888999999999999


Q ss_pred             HHHHHHHHHH
Q 036731          180 KAHDLFLDME  189 (259)
Q Consensus       180 ~a~~~~~~~~  189 (259)
                      +|.++-..-.
T Consensus       220 ~A~~i~~~e~  229 (257)
T COG5010         220 EAEDIAVQEL  229 (257)
T ss_pred             HHHhhccccc
Confidence            9998875544

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.72  E-value=3.1e-08  Score=49.01  Aligned_cols=34  Identities=59%  Similarity=1.003  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCch
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNV   51 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~   51 (259)
                      +||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6788888888888888888888888888887763

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.

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

Probab=98.71  E-value=2.2e-05  Score=61.16  Aligned_cols=213  Identities=13%  Similarity=0.110  Sum_probs=162.7

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCch--HhHHHHHHH--------HhhcCChhHHHHHHHHHHHcCCCC
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNV--VTYNSLIHG--------FCYANDGNEAEYLFIEMMDRGLQS   84 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~--------~~~~~~~~~a~~~~~~~~~~~~~~   84 (259)
                      |-.+|--.+..-...|+.+...++|++.... ++|-.  ..|...|..        =....+.+.+.++|+...+. ++.
T Consensus       321 nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPH  398 (677)
T KOG1915|consen  321 NYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPH  398 (677)
T ss_pred             CchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCc
Confidence            5667777788888889999999999999875 55532  223322221        13568899999999999884 565


Q ss_pred             chhhHHHHHHHH----HHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 036731           85 DVVTFNVIMDEL----CKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP  160 (259)
Q Consensus        85 ~~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (259)
                      ...||..+=-.|    .++.++..|.+++...+.  .-|..      .+|-..|..=.+.++++.+..+++...+.+.. 
T Consensus       399 kkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG--~cPK~------KlFk~YIelElqL~efDRcRkLYEkfle~~Pe-  469 (677)
T KOG1915|consen  399 KKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIG--KCPKD------KLFKGYIELELQLREFDRCRKLYEKFLEFSPE-  469 (677)
T ss_pred             ccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhc--cCCch------hHHHHHHHHHHHHhhHHHHHHHHHHHHhcChH-
Confidence            666766554444    467889999999987654  44433      89999999999999999999999999998644 


Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHH
Q 036731          161 NVVTYNITIHALCNDEQMDKAHDLFLDMEVKG-VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIV  239 (259)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  239 (259)
                      +..+|......-...|+.+.|..+|.-..+.. .......|.+.|+.-...|.++.|..+++++++.  .+...+|.+..
T Consensus       470 ~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r--t~h~kvWisFA  547 (677)
T KOG1915|consen  470 NCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR--TQHVKVWISFA  547 (677)
T ss_pred             hhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--cccchHHHhHH
Confidence            78889888888889999999999999988763 2223466888888888999999999999999876  33444565554


Q ss_pred             H
Q 036731          240 D  240 (259)
Q Consensus       240 ~  240 (259)
                      .
T Consensus       548 ~  548 (677)
T KOG1915|consen  548 K  548 (677)
T ss_pred             H
Confidence            4

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

Probab=98.71  E-value=2.1e-05  Score=63.34  Aligned_cols=235  Identities=11%  Similarity=0.102  Sum_probs=151.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcC----------------------ChhHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN----------------------DGNEAEYLF   74 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~----------------------~~~~a~~~~   74 (259)
                      ..|+.|.+-|.+.|.+++|.++|++....  ..+..-|..+.++|+.-.                      +++-...-|
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~  326 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARF  326 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHH
Confidence            46899999999999999999999998876  335555666666554321                      122233333


Q ss_pred             HHHHHcC-----------CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCCh
Q 036731           75 IEMMDRG-----------LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKL  143 (259)
Q Consensus        75 ~~~~~~~-----------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  143 (259)
                      +.+...+           -+.+...|..-+..  ..|+..+-...+.+..+. +.|......-...|..+.+.|-..|++
T Consensus       327 e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l  403 (835)
T KOG2047|consen  327 ESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDL  403 (835)
T ss_pred             HHHHhccchHHHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcH
Confidence            3333321           11133334333332  345677777777777653 333332222447899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCC---hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCC----------CC-------cHHHHHHH
Q 036731          144 KNARELSQSLTRAGLMPN---VVTYNITIHALCNDEQMDKAHDLFLDMEVKGV----------AP-------NCVIFTTL  203 (259)
Q Consensus       144 ~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~----------~p-------~~~~~~~l  203 (259)
                      +.|..+|++..+...+--   ..+|......-.+..+++.|+.+++......-          .|       +...|..+
T Consensus       404 ~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y  483 (835)
T KOG2047|consen  404 DDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMY  483 (835)
T ss_pred             HHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHH
Confidence            999999999887543311   34667777777788899999999887653211          11       34556667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          204 MPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       204 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ++.....|-++....+++++++..+. ++.+.....-.+..+.-++++.++|++
T Consensus       484 ~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YEr  536 (835)
T KOG2047|consen  484 ADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYER  536 (835)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHc
Confidence            77777788999999999999887653 333333344445566666777766654

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.70  E-value=3.6e-08  Score=48.40  Aligned_cols=33  Identities=36%  Similarity=0.604  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCC
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINP   49 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~   49 (259)
                      .+||.+|.+|++.|+++.|.++|++|.+.|++|
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            467777777777777777777777777766665

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.66  E-value=3e-06  Score=57.09  Aligned_cols=128  Identities=17%  Similarity=0.145  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc---hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCch--hhHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN---VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDV--VTFN   90 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~   90 (259)
                      ...|..++..+ ..++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+........|+.  ....
T Consensus        12 ~~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l   89 (145)
T PF09976_consen   12 SALYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARL   89 (145)
T ss_pred             HHHHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHH
Confidence            34577777777 4889999999999998763 222   233334557788999999999999999987633332  2444


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 036731           91 VIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSL  153 (259)
Q Consensus        91 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  153 (259)
                      .|...+...|++++|+..++.......        ....+.....++.+.|++++|...|+..
T Consensus        90 ~LA~~~~~~~~~d~Al~~L~~~~~~~~--------~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   90 RLARILLQQGQYDEALATLQQIPDEAF--------KALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhccCcch--------HHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            577889999999999999977433222        4467888999999999999999999863

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.64  E-value=2.7e-05  Score=63.85  Aligned_cols=230  Identities=12%  Similarity=0.004  Sum_probs=157.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc-CCCCchhhHHHHHHHHHHcC
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR-GLQSDVVTFNVIMDELCKNR  100 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~  100 (259)
                      +.--|+..++++.|.+..++..+-+-.-+...|..+.-.+...+++.+|+.+.+...+. |.  |......-+..-...+
T Consensus       484 lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~--N~~l~~~~~~i~~~~~  561 (799)
T KOG4162|consen  484 LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD--NHVLMDGKIHIELTFN  561 (799)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh--hhhhchhhhhhhhhcc
Confidence            44556778899999999999988765678889999999999999999999999877654 11  1111000111111122


Q ss_pred             CHHHHHHHHHHHH-----------------h----CCC--CCCCc---------------------------------cc
Q 036731          101 KMDEATRLLDLMI-----------------Q----GGV--RPDAF---------------------------------CE  124 (259)
Q Consensus       101 ~~~~a~~~~~~~~-----------------~----~~~--~~~~~---------------------------------~~  124 (259)
                      +.++++.....+.                 .    .|.  .+...                                 ..
T Consensus       562 ~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~  641 (799)
T KOG4162|consen  562 DREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPG  641 (799)
T ss_pred             cHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcccccCC
Confidence            2222222111110                 0    000  00000                                 01


Q ss_pred             ------hhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHH
Q 036731          125 ------INIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCV  198 (259)
Q Consensus       125 ------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  198 (259)
                            .-...|......+.+.+..++|...+.+..+.. +.....|......+...|..++|.+.|......+ +-++.
T Consensus       642 ~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld-P~hv~  719 (799)
T KOG4162|consen  642 PDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD-PDHVP  719 (799)
T ss_pred             CCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC-CCCcH
Confidence                  113456667777888889999998888877653 3355667777778888999999999998888662 23456


Q ss_pred             HHHHHHHHHHhcCCHHHHHH--HHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          199 IFTTLMPSFIRKNETSKVIE--LLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       199 ~~~~l~~~~~~~~~~~~a~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                      ...++...+.+.|+..-|..  ++..+.+.+ +.+...|..+...+.+.|+.++|.+.|.
T Consensus       720 s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~  778 (799)
T KOG4162|consen  720 SMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQ  778 (799)
T ss_pred             HHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHH
Confidence            78889999999998888877  999999886 4588999999999999999999988774

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.64  E-value=8.5e-07  Score=69.28  Aligned_cols=127  Identities=13%  Similarity=0.157  Sum_probs=105.9

Q ss_pred             ccccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhC--CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc
Q 036731            8 FGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDE--NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD   85 (259)
Q Consensus         8 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~   85 (259)
                      |.+..+.+......+++.+....+++.+..++.+.+.+  ....-..|..++++.|...|..+.++.++..=...|+-||
T Consensus        58 ~~~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D  137 (429)
T PF10037_consen   58 FERKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPD  137 (429)
T ss_pred             HhcCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCC
Confidence            55556667888888999999999999999999998876  3333455667999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhc
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKI  140 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  140 (259)
                      ..++|.||+.+.+.|++..|.++...|...+...+      ..++...+.+|.+.
T Consensus       138 ~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~------~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  138 NFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDN------PSTQALALYSCYKY  186 (429)
T ss_pred             hhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCC------chHHHHHHHHHHHh
Confidence            99999999999999999999999988876655543      26666666666665

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 [].

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.63  E-value=5.6e-05  Score=54.13  Aligned_cols=190  Identities=12%  Similarity=0.060  Sum_probs=140.9

Q ss_pred             cCChHHHHHHHHHHhhC---C-CCCchH-hHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHH
Q 036731           29 EGFVDKAKELFLQMKDE---N-INPNVV-TYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMD  103 (259)
Q Consensus        29 ~~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  103 (259)
                      ..+.++..+++.++...   | ..++.. .|..++-+....|+.+.|...++.+.+. ++-+...-..-...+-..|.++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchh
Confidence            45678888998888643   4 445543 4556777778899999999999999876 3333333333333455688999


Q ss_pred             HHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHH
Q 036731          104 EATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHD  183 (259)
Q Consensus       104 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  183 (259)
                      +|+++++.+.+.+  |+     |..++-.=+...-..|+.-+|++-+....+. +..|...|.-+...|...|++++|.-
T Consensus       104 ~A~e~y~~lL~dd--pt-----~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~f  175 (289)
T KOG3060|consen  104 EAIEYYESLLEDD--PT-----DTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAF  175 (289)
T ss_pred             hHHHHHHHHhccC--cc-----hhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHH
Confidence            9999999998765  43     5678877777888888888999888888776 55699999999999999999999999


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcC---CHHHHHHHHHHHhhCCC
Q 036731          184 LFLDMEVKGVAPNCVIFTTLMPSFIRKN---ETSKVIELLRSMDKRNV  228 (259)
Q Consensus       184 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~  228 (259)
                      .++++.-.. +.++..+..+.+.+.-.|   +.+.+.+++.+..+...
T Consensus       176 ClEE~ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  176 CLEELLLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             HHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            999998762 334555666666554443   45678888888887644

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

Probab=98.63  E-value=1.1e-05  Score=61.65  Aligned_cols=213  Identities=14%  Similarity=0.072  Sum_probs=141.6

Q ss_pred             HHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHH
Q 036731           25 GLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDE  104 (259)
Q Consensus        25 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  104 (259)
                      .+.+.|+++....+...+.... .-....|-.-.......++++.|+.+-++..+.... +...+-.-...+...+++++
T Consensus       275 LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~  352 (564)
T KOG1174|consen  275 LLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQ  352 (564)
T ss_pred             HHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHH
Confidence            3456777777777777765431 123333444444445667788888887777765322 44455555566777888888


Q ss_pred             HHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-----------C----------------
Q 036731          105 ATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA-----------G----------------  157 (259)
Q Consensus       105 a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------~----------------  157 (259)
                      |.-.|+.....  .|.     +...|.-|+.+|...|.+.+|..+-++..+.           |                
T Consensus       353 A~IaFR~Aq~L--ap~-----rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKk  425 (564)
T KOG1174|consen  353 AVIAFRTAQML--APY-----RLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKK  425 (564)
T ss_pred             HHHHHHHHHhc--chh-----hHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHH
Confidence            88777776653  332     5578888888888888877766554443211           1                


Q ss_pred             -------CCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc
Q 036731          158 -------LMPN-VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVM  229 (259)
Q Consensus       158 -------~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  229 (259)
                             +.|+ ....+.+...+...|..+.+..++++....  .||....+.|.+.+...+.+++|.+.|......+  
T Consensus       426 f~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d--  501 (564)
T KOG1174|consen  426 FAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD--  501 (564)
T ss_pred             HHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC--
Confidence                   1222 223466677788999999999999998876  7899999999999999999999999999988764  


Q ss_pred             cchHHHHHHHHHHHHhcccCC
Q 036731          230 PYASILSIIVDLLVKNEISLN  250 (259)
Q Consensus       230 ~~~~~~~~l~~~~~~~g~~~~  250 (259)
                      |....-..=++-+.+..+..+
T Consensus       502 P~~~~sl~Gl~~lEK~~~~~D  522 (564)
T KOG1174|consen  502 PKSKRTLRGLRLLEKSDDESD  522 (564)
T ss_pred             ccchHHHHHHHHHHhccCCCC
Confidence            443333333444555444433

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

Probab=98.63  E-value=5.2e-06  Score=55.21  Aligned_cols=52  Identities=13%  Similarity=0.016  Sum_probs=19.8

Q ss_pred             HHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 036731           60 GFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLM  112 (259)
Q Consensus        60 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  112 (259)
                      .+...|++++|.+.++.+...+ +.+...+..+..++...|++++|...+++.
T Consensus        26 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~   77 (135)
T TIGR02552        26 NLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALA   77 (135)
T ss_pred             HHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444333322 113333333333444444444444444433

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

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

Probab=98.63  E-value=4.8e-06  Score=65.87  Aligned_cols=184  Identities=13%  Similarity=0.052  Sum_probs=132.2

Q ss_pred             HhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhc
Q 036731           61 FCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKI  140 (259)
Q Consensus        61 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  140 (259)
                      +.+.|++.+|.-.|+........ +...|-.|...-...++-..|+..+++..+.  .|+     +..+...|.-.|...
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~L--dP~-----NleaLmaLAVSytNe  366 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLEL--DPT-----NLEALMALAVSYTNE  366 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhc--CCc-----cHHHHHHHHHHHhhh
Confidence            46789999999999999887433 7889999999999999999999999998875  455     678888888888888


Q ss_pred             CChHHHHHHHHHHHHc------------------------------------------CCCCChhhHHHHHHHHHhcCCh
Q 036731          141 GKLKNARELSQSLTRA------------------------------------------GLMPNVVTYNITIHALCNDEQM  178 (259)
Q Consensus       141 ~~~~~a~~~~~~~~~~------------------------------------------~~~~~~~~~~~li~~~~~~~~~  178 (259)
                      |.-..|.+.++.-...                                          +..+|..+...|.-.|.-.|++
T Consensus       367 g~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~ef  446 (579)
T KOG1125|consen  367 GLQNQALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEF  446 (579)
T ss_pred             hhHHHHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHH
Confidence            8888888877765432                                          1123444555555556667777


Q ss_pred             hHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccc-hHHHHHHHHHHHHhcccCCcchhh
Q 036731          179 DKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPY-ASILSIIVDLLVKNEISLNSIPQF  255 (259)
Q Consensus       179 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~  255 (259)
                      ++|.+.|+..+... +-|...||.|...++...+.++|...+++.++.  .|+ +....-|.-+|...|.+++|.+.|
T Consensus       447 draiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hl  521 (579)
T KOG1125|consen  447 DRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHL  521 (579)
T ss_pred             HHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHH
Confidence            77888777777652 234566777777777777778888888777764  332 333334556677777777776654

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

Probab=98.63  E-value=7.4e-05  Score=60.39  Aligned_cols=31  Identities=16%  Similarity=0.192  Sum_probs=27.3

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      -...|++|.+.|.+.|++++|..+|++....
T Consensus       247 ~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~  277 (835)
T KOG2047|consen  247 LGFLWCSLADYYIRSGLFEKARDVYEEAIQT  277 (835)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            3478999999999999999999999987654

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

Probab=98.61  E-value=7.2e-06  Score=54.54  Aligned_cols=108  Identities=12%  Similarity=-0.018  Sum_probs=89.5

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      +......+...+...|++++|...++.....+ +.+...+..+...+...|++++|...++.....+ +.+...+..+..
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~   93 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAE   93 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHH
Confidence            44667788888999999999999999998865 3377788889999999999999999999988764 456778888889


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCccchHHHHH
Q 036731          206 SFIRKNETSKVIELLRSMDKRNVMPYASILSI  237 (259)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  237 (259)
                      .+...|++++|...++...+.  .|+...+..
T Consensus        94 ~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~  123 (135)
T TIGR02552        94 CLLALGEPESALKALDLAIEI--CGENPEYSE  123 (135)
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--ccccchHHH
Confidence            999999999999999998876  355444443

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

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.61  E-value=7.7e-06  Score=55.14  Aligned_cols=118  Identities=10%  Similarity=0.044  Sum_probs=52.2

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh--hhHHHHHHHHHhcC
Q 036731           99 NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNV--VTYNITIHALCNDE  176 (259)
Q Consensus        99 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~~  176 (259)
                      .++...+...++.+.+......    ......-.+...+...|++++|...|+........|+.  .....+...+...|
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~----ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~   99 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSP----YAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQG   99 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCh----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcC
Confidence            4455555555555544321110    01223333344455555555555555555554322211  12223344455555


Q ss_pred             ChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 036731          177 QMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRS  222 (259)
Q Consensus       177 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (259)
                      ++++|+..++.....  ......+......+.+.|++++|...|+.
T Consensus       100 ~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  100 QYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             CHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            555555555443322  12223344444555555555555555543

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.61  E-value=3.8e-05  Score=57.48  Aligned_cols=221  Identities=11%  Similarity=0.060  Sum_probs=160.4

Q ss_pred             HHHHhcCChHHHHHHHHHHhhCCCCC--chHhH------------HHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhH
Q 036731           24 DGLCKEGFVDKAKELFLQMKDENINP--NVVTY------------NSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTF   89 (259)
Q Consensus        24 ~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~------------~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   89 (259)
                      ..+.+.|.++.|..=|+...++...-  +...+            ...+..+...|+...|+.....+.+.. +-|...+
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 VVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLR  192 (504)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHH
Confidence            45678899999999999988763110  11111            223445667799999999999998873 4477778


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH----
Q 036731           90 NVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTY----  165 (259)
Q Consensus        90 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----  165 (259)
                      ..-..+|...|++..|+.=+....+...  +     ++.++--+-..+...|+.+.++...++..+.  .||...+    
T Consensus       193 ~~Rakc~i~~~e~k~AI~Dlk~askLs~--D-----nTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~Y  263 (504)
T KOG0624|consen  193 QARAKCYIAEGEPKKAIHDLKQASKLSQ--D-----NTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFY  263 (504)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhccc--c-----chHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHH
Confidence            8888999999999999887777665432  2     4578888888999999999999999998875  3554322    


Q ss_pred             HHH---------HHHHHhcCChhHHHHHHHHHHhcCCCCc-----HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccc
Q 036731          166 NIT---------IHALCNDEQMDKAHDLFLDMEVKGVAPN-----CVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPY  231 (259)
Q Consensus       166 ~~l---------i~~~~~~~~~~~a~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  231 (259)
                      -.+         +......++|.+++...+...+.  .|.     ...+..+-.++...+++.+|.+...+.++.. +.|
T Consensus       264 KklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~--ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d-~~d  340 (504)
T KOG0624|consen  264 KKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN--EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDID-PDD  340 (504)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc--CCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcC-chH
Confidence            111         22234567888888888887776  333     2345556677788899999999999998763 335


Q ss_pred             hHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          232 ASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       232 ~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ..++..-..+|.-...+++|+.-|+.
T Consensus       341 v~~l~dRAeA~l~dE~YD~AI~dye~  366 (504)
T KOG0624|consen  341 VQVLCDRAEAYLGDEMYDDAIHDYEK  366 (504)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            88888888888888888888876653

>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=98.60  E-value=4.3e-06  Score=65.10  Aligned_cols=123  Identities=20%  Similarity=0.237  Sum_probs=101.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHc
Q 036731           20 NTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKN   99 (259)
Q Consensus        20 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   99 (259)
                      ..|+..+...++++.|..+|+++.+..  |+  ....+++.+...++-.+|.+++.+..... +.+..........|.+.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            345566677889999999999998873  44  45567888888889999999999998763 33667777777889999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 036731          100 RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLT  154 (259)
Q Consensus       100 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  154 (259)
                      ++++.|+.+.++..+.  .|+     +-.+|..|..+|...|+++.|+..++.+.
T Consensus       248 ~~~~lAL~iAk~av~l--sP~-----~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVEL--SPS-----EFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHh--Cch-----hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999875  454     45899999999999999999999998875

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=98.59  E-value=5.2e-06  Score=64.64  Aligned_cols=124  Identities=15%  Similarity=0.112  Sum_probs=98.7

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHH
Q 036731           53 TYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC  132 (259)
Q Consensus        53 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  132 (259)
                      ....|+..+...++++.|..+++++.+..  |+  ....+++.+...++-.+|.+++.+..+..  |.     +......
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~--p~-----d~~LL~~  239 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN--PQ-----DSELLNL  239 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC--CC-----CHHHHHH
Confidence            34556677777889999999999998873  44  44557888888888889999998887542  22     4577777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 036731          133 LIDGLCKIGKLKNARELSQSLTRAGLMPN-VVTYNITIHALCNDEQMDKAHDLFLDME  189 (259)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~  189 (259)
                      ....+.+.++++.|+.+.+++.+.  .|+ -.+|..|..+|...|+++.|+..++.+.
T Consensus       240 Qa~fLl~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  240 QAEFLLSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            888899999999999999999886  344 4589999999999999999998888764

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.58  E-value=1.5e-07  Score=46.48  Aligned_cols=33  Identities=42%  Similarity=0.847  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN  161 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  161 (259)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            577777777777777777777777777777665

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=98.57  E-value=2.1e-06  Score=67.12  Aligned_cols=121  Identities=17%  Similarity=0.189  Sum_probs=61.4

Q ss_pred             CCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc--CCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccch
Q 036731           48 NPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR--GLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEI  125 (259)
Q Consensus        48 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  125 (259)
                      +.+......+++.+....+.+.+..++.+....  ....-..|.+++++.|...|..+.++.++..=...|+.||.    
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~----  138 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDN----  138 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCCh----
Confidence            344444555555555555555555555555443  12222334445555555555555555555555555555543    


Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                        .+++.+++.+.+.|++..|.++...|...+...+..|+...+.+|.+
T Consensus       139 --~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  139 --FSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             --hhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence              55555555555555555555555555544444444444444444333

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=98.56  E-value=1.9e-06  Score=53.50  Aligned_cols=80  Identities=16%  Similarity=0.284  Sum_probs=69.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhCCC-CCchHhHHHHHHHHhhcC--------ChhHHHHHHHHHHHcCCCCchhhH
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQMKDENI-NPNVVTYNSLIHGFCYAN--------DGNEAEYLFIEMMDRGLQSDVVTF   89 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~   89 (259)
                      -...|..+...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        ++-..+.+|++|...+++|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34567777778999999999999999999 899999999999887653        344688999999999999999999


Q ss_pred             HHHHHHHHH
Q 036731           90 NVIMDELCK   98 (259)
Q Consensus        90 ~~l~~~~~~   98 (259)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            999988765

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.56  E-value=1.6e-07  Score=46.02  Aligned_cols=33  Identities=24%  Similarity=0.431  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP  160 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (259)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            456666666666666666666666666666554

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

Probab=98.54  E-value=0.00021  Score=55.98  Aligned_cols=200  Identities=15%  Similarity=0.074  Sum_probs=134.1

Q ss_pred             cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHH
Q 036731           13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVI   92 (259)
Q Consensus        13 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   92 (259)
                      .|+...+...+.+......-..+-.++.+..+.  .-...-|.. ...+...|++++|+..++.+... .+-|+..+...
T Consensus       271 ~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~-A~~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~  346 (484)
T COG4783         271 SPDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGR-ALQTYLAGQYDEALKLLQPLIAA-QPDNPYYLELA  346 (484)
T ss_pred             CccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHH-HHHHHHhcccchHHHHHHHHHHh-CCCCHHHHHHH
Confidence            455666666666554443333333333222221  112222333 33456789999999999998876 23356666677


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 036731           93 MDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHAL  172 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  172 (259)
                      ...+...++.++|.+.++.+...  .|+     .......+..++.+.|++.+|..+++...... +-|...|..|.++|
T Consensus       347 ~~i~~~~nk~~~A~e~~~kal~l--~P~-----~~~l~~~~a~all~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay  418 (484)
T COG4783         347 GDILLEANKAKEAIERLKKALAL--DPN-----SPLLQLNLAQALLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAY  418 (484)
T ss_pred             HHHHHHcCChHHHHHHHHHHHhc--CCC-----ccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHH
Confidence            88899999999999999998875  343     24778888999999999999999999988774 44888999999999


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC--CccchHHHHHHHHHH
Q 036731          173 CNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN--VMPYASILSIIVDLL  242 (259)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~  242 (259)
                      ...|+..++....                  .+.+...|+++.|...+....+..  ..|+-.-+...+...
T Consensus       419 ~~~g~~~~a~~A~------------------AE~~~~~G~~~~A~~~l~~A~~~~~~~~~~~aR~dari~~~  472 (484)
T COG4783         419 AELGNRAEALLAR------------------AEGYALAGRLEQAIIFLMRASQQVKLGFPDWARADARIDQL  472 (484)
T ss_pred             HHhCchHHHHHHH------------------HHHHHhCCCHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHH
Confidence            9999877775443                  344556788888888887776542  133333444444443

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

Probab=98.54  E-value=8.3e-05  Score=59.40  Aligned_cols=216  Identities=13%  Similarity=0.028  Sum_probs=136.3

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHc
Q 036731           20 NTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKN   99 (259)
Q Consensus        20 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   99 (259)
                      -+=++-+...|++++|.+...++...+ +-+...+..-+.+..+.+++++|+.+.+.-...  ..+...+..-..+..+.
T Consensus        16 ~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrl   92 (652)
T KOG2376|consen   16 LTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRL   92 (652)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHc
Confidence            344567778899999999999998875 556777888888899999999999665432211  11222222334455688


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH-hcCCh
Q 036731          100 RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC-NDEQM  178 (259)
Q Consensus       100 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-~~~~~  178 (259)
                      +..++|+..++     |..+.     +..+...-...+.+.|++++|+.+|+.+.+++..    .+..-+.+-+ ..+-.
T Consensus        93 nk~Dealk~~~-----~~~~~-----~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d----d~d~~~r~nl~a~~a~  158 (652)
T KOG2376|consen   93 NKLDEALKTLK-----GLDRL-----DDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD----DQDEERRANLLAVAAA  158 (652)
T ss_pred             ccHHHHHHHHh-----ccccc-----chHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc----hHHHHHHHHHHHHHHh
Confidence            99999999887     33333     3357777888999999999999999999887543    2322222211 11111


Q ss_pred             hHHHHHHHHHHhcCCCCcHHHHHHHH---HHHHhcCCHHHHHHHHHHHhh-------C------CCccchH-HHHHHHHH
Q 036731          179 DKAHDLFLDMEVKGVAPNCVIFTTLM---PSFIRKNETSKVIELLRSMDK-------R------NVMPYAS-ILSIIVDL  241 (259)
Q Consensus       179 ~~a~~~~~~~~~~~~~p~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~-------~------~~~~~~~-~~~~l~~~  241 (259)
                      ..+. +.+...   ..| ..+|..+.   -.+...|++.+|+++++...+       .      ++..... +-..+.-+
T Consensus       159 l~~~-~~q~v~---~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayV  233 (652)
T KOG2376|consen  159 LQVQ-LLQSVP---EVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYV  233 (652)
T ss_pred             hhHH-HHHhcc---CCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHH
Confidence            1121 222222   233 23444443   345678999999999998721       1      1111111 22345556


Q ss_pred             HHHhcccCCcchhhhc
Q 036731          242 LVKNEISLNSIPQFNR  257 (259)
Q Consensus       242 ~~~~g~~~~a~~~~~~  257 (259)
                      +-..|+.++|.++|..
T Consensus       234 lQ~~Gqt~ea~~iy~~  249 (652)
T KOG2376|consen  234 LQLQGQTAEASSIYVD  249 (652)
T ss_pred             HHHhcchHHHHHHHHH
Confidence            6788999999987754

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.52  E-value=1.3e-05  Score=58.83  Aligned_cols=198  Identities=12%  Similarity=0.111  Sum_probs=142.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHH-HHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNV-IMD   94 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~   94 (259)
                      ..-+.+++..+.+..+++.|++++..-.+.. +.+....+.|..+|....++..|-..++++-..  .|...-|.. -..
T Consensus        10 EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQ   86 (459)
T KOG4340|consen   10 EGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQ   86 (459)
T ss_pred             CCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHH
Confidence            3447778888889999999999998877663 337778888899999999999999999998765  444444432 345


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      .+.+.+.+..|+++...|.+.   +..    -......-.......+++..+..++++....|   +..+.+.......+
T Consensus        87 SLY~A~i~ADALrV~~~~~D~---~~L----~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllyk  156 (459)
T KOG4340|consen   87 SLYKACIYADALRVAFLLLDN---PAL----HSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYK  156 (459)
T ss_pred             HHHHhcccHHHHHHHHHhcCC---HHH----HHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeec
Confidence            667788999999999888643   110    11222222233456788888998888876432   44455555555678


Q ss_pred             cCChhHHHHHHHHHHhc-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 036731          175 DEQMDKAHDLFLDMEVK-GVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNV  228 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  228 (259)
                      .|+++.|.+-|+...+- |..| ...|+..+.. .+.++++.|.+...+++++|+
T Consensus       157 egqyEaAvqkFqaAlqvsGyqp-llAYniALaH-y~~~qyasALk~iSEIieRG~  209 (459)
T KOG4340|consen  157 EGQYEAAVQKFQAALQVSGYQP-LLAYNLALAH-YSSRQYASALKHISEIIERGI  209 (459)
T ss_pred             cccHHHHHHHHHHHHhhcCCCc-hhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhh
Confidence            99999999999998876 4444 5667765544 467899999999999887654

>PLN02789 farnesyltranstransferase

Probab=98.51  E-value=0.00021  Score=54.59  Aligned_cols=199  Identities=9%  Similarity=0.034  Sum_probs=141.6

Q ss_pred             CHHHHHHHHHHHHhcC-ChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCCh--hHHHHHHHHHHHcCCCCchhhHHH
Q 036731           15 NTVTYNTIIDGLCKEG-FVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDG--NEAEYLFIEMMDRGLQSDVVTFNV   91 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~   91 (259)
                      +..+|+.--.++...| ++++++..++++.+.. +-+..+|+.....+.+.|+.  ++++.+++.+.+...+ +..+|+.
T Consensus        70 ~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dpk-Ny~AW~~  147 (320)
T PLN02789         70 NYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDAK-NYHAWSH  147 (320)
T ss_pred             hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCcc-cHHHHHH
Confidence            3445665556666667 6799999999998764 33566777665555566653  6788999899877544 7889999


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhc---CCh----HHHHHHHHHHHHcCCCCChhh
Q 036731           92 IMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKI---GKL----KNARELSQSLTRAGLMPNVVT  164 (259)
Q Consensus        92 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~----~~a~~~~~~~~~~~~~~~~~~  164 (259)
                      ...++...|+++++++.++++.+.+..       +..+|+.....+.+.   |..    +.......+...... -|...
T Consensus       148 R~w~l~~l~~~~eeL~~~~~~I~~d~~-------N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P-~N~Sa  219 (320)
T PLN02789        148 RQWVLRTLGGWEDELEYCHQLLEEDVR-------NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANP-RNESP  219 (320)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHCCC-------chhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCC-CCcCH
Confidence            999999999999999999999987654       347777777666554   222    456777767766543 36778


Q ss_pred             HHHHHHHHHhc----CChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC------------------CHHHHHHHHHH
Q 036731          165 YNITIHALCND----EQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKN------------------ETSKVIELLRS  222 (259)
Q Consensus       165 ~~~li~~~~~~----~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~------------------~~~~a~~~~~~  222 (259)
                      |+.+...+...    +...+|...+.+....+ ..+......|++.|+...                  ..++|.+++..
T Consensus       220 W~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  298 (320)
T PLN02789        220 WRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSE  298 (320)
T ss_pred             HHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHH
Confidence            88888877763    34466888888876653 346677888888887532                  23567777777


Q ss_pred             Hh
Q 036731          223 MD  224 (259)
Q Consensus       223 ~~  224 (259)
                      +.
T Consensus       299 l~  300 (320)
T PLN02789        299 LE  300 (320)
T ss_pred             HH
Confidence            73

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

Probab=98.51  E-value=4.9e-05  Score=59.31  Aligned_cols=148  Identities=15%  Similarity=0.092  Sum_probs=116.8

Q ss_pred             HHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHHcCCH
Q 036731           24 DGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD-VVTFNVIMDELCKNRKM  102 (259)
Q Consensus        24 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~  102 (259)
                      ..+...|++++|+..++.+... .+-|...+......+.+.++.++|.+.++.+...  .|+ ....-.+..++.+.|++
T Consensus       314 ~~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~  390 (484)
T COG4783         314 LQTYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKP  390 (484)
T ss_pred             HHHHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCCh
Confidence            3455789999999999998876 2335555566778899999999999999999987  445 66677889999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHH
Q 036731          103 DEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAH  182 (259)
Q Consensus       103 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  182 (259)
                      .+|+.+++......  |+     |+..|..|..+|...|+..++..-..+.                  +...|+++.|.
T Consensus       391 ~eai~~L~~~~~~~--p~-----dp~~w~~LAqay~~~g~~~~a~~A~AE~------------------~~~~G~~~~A~  445 (484)
T COG4783         391 QEAIRILNRYLFND--PE-----DPNGWDLLAQAYAELGNRAEALLARAEG------------------YALAGRLEQAI  445 (484)
T ss_pred             HHHHHHHHHHhhcC--CC-----CchHHHHHHHHHHHhCchHHHHHHHHHH------------------HHhCCCHHHHH
Confidence            99999999887653  32     5699999999999999998887766543                  45568888998


Q ss_pred             HHHHHHHhcCCCCcHHHH
Q 036731          183 DLFLDMEVKGVAPNCVIF  200 (259)
Q Consensus       183 ~~~~~~~~~~~~p~~~~~  200 (259)
                      ..+....+. ++++..+|
T Consensus       446 ~~l~~A~~~-~~~~~~~~  462 (484)
T COG4783         446 IFLMRASQQ-VKLGFPDW  462 (484)
T ss_pred             HHHHHHHHh-ccCCcHHH
Confidence            888887766 24444443

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

Probab=98.49  E-value=4.5e-05  Score=61.45  Aligned_cols=187  Identities=14%  Similarity=0.098  Sum_probs=80.4

Q ss_pred             cCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHH
Q 036731           29 EGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRL  108 (259)
Q Consensus        29 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  108 (259)
                      .|+-++|.+..+...+.. ..+.+.|..+.-.+....++++|++.|......+.. |...|.-+--.-++.++++.....
T Consensus        54 lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslLQ~QmRd~~~~~~t  131 (700)
T KOG1156|consen   54 LGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKD-NLQILRDLSLLQIQMRDYEGYLET  131 (700)
T ss_pred             ccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHHHhhhhHHHH
Confidence            334444444444333322 113334444444444444444444444444433211 333333333333344444444444


Q ss_pred             HHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCChhhHHHHHHHHH------hcCChhHH
Q 036731          109 LDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG-LMPNVVTYNITIHALC------NDEQMDKA  181 (259)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~------~~~~~~~a  181 (259)
                      ..++.+....       ....|..+..++--.|++..|..+.++..+.. -.|+...+......+.      ..|..+.|
T Consensus       132 r~~LLql~~~-------~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~a  204 (700)
T KOG1156|consen  132 RNQLLQLRPS-------QRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKA  204 (700)
T ss_pred             HHHHHHhhhh-------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHH
Confidence            3333332111       22455555555555566666666666555443 1344444433333221      23444444


Q ss_pred             HHHHHHHHhcCCCCcHHHH-HHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          182 HDLFLDMEVKGVAPNCVIF-TTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       182 ~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      ++.+..-...  ..|-..+ ..-...+.+.+++++|..++..++..
T Consensus       205 le~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r  248 (700)
T KOG1156|consen  205 LEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER  248 (700)
T ss_pred             HHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh
Confidence            4444333222  1122222 12234455666777777777776665

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.49  E-value=0.00012  Score=64.53  Aligned_cols=238  Identities=10%  Similarity=0.010  Sum_probs=152.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhC----CCC-CchHhHHHHHHHHhhcCChhHHHHHHHHHHHc----CCC--C-c
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDE----NIN-PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR----GLQ--S-D   85 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~   85 (259)
                      ..+.+...+...|++++|...+++....    |.. ....++..+...+...|+++.|...+++....    +..  + .
T Consensus       493 a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  572 (903)
T PRK04841        493 ATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMH  572 (903)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHH
Confidence            4566667778899999999999887643    211 11234455667788899999999998876542    211  1 2


Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CChhh
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM-PNVVT  164 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~  164 (259)
                      ...+..+...+...|++++|...+++..........  ......+..+...+...|+++.|...+.+....... .....
T Consensus       573 ~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~--~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~  650 (903)
T PRK04841        573 EFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQP--QQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSD  650 (903)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCc--hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHh
Confidence            233445566677889999999998887543211100  113355666777888999999999999887543111 01111


Q ss_pred             H-----HHHHHHHHhcCChhHHHHHHHHHHhcCCCCcH---HHHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCcc-c
Q 036731          165 Y-----NITIHALCNDEQMDKAHDLFLDMEVKGVAPNC---VIFTTLMPSFIRKNETSKVIELLRSMDKR----NVMP-Y  231 (259)
Q Consensus       165 ~-----~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~  231 (259)
                      +     ...+..+...|+.+.|..++............   ..+..+..++...|++++|...+.+....    |..+ .
T Consensus       651 ~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~  730 (903)
T PRK04841        651 WIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDL  730 (903)
T ss_pred             HhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHH
Confidence            1     11224445678899999888775543211111   11345667788899999999999887642    3222 2


Q ss_pred             hHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          232 ASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       232 ~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ..+...+..++.+.|+.++|...+.+
T Consensus       731 a~~~~~la~a~~~~G~~~~A~~~L~~  756 (903)
T PRK04841        731 NRNLILLNQLYWQQGRKSEAQRVLLE  756 (903)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            34566677788899999888877654

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.48  E-value=7.1e-06  Score=51.00  Aligned_cols=82  Identities=20%  Similarity=0.321  Sum_probs=59.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCChhhHHHHHHHHHhcC--------ChhHHHHHHHHHHhcCCCCcHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGL-MPNVVTYNITIHALCNDE--------QMDKAHDLFLDMEVKGVAPNCV  198 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~--------~~~~a~~~~~~~~~~~~~p~~~  198 (259)
                      .+....|..+...+++.....+|+.+++.|+ .|+..+|+.++.+..+..        .+-..+.+|++|...+++|+..
T Consensus        26 ~t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~e  105 (120)
T PF08579_consen   26 ETQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDE  105 (120)
T ss_pred             HHHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHH
Confidence            3445566666677888888888888888888 788888888888776543        2345667777777777777777


Q ss_pred             HHHHHHHHHHh
Q 036731          199 IFTTLMPSFIR  209 (259)
Q Consensus       199 ~~~~l~~~~~~  209 (259)
                      +|+.++..+.+
T Consensus       106 tYnivl~~Llk  116 (120)
T PF08579_consen  106 TYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHH
Confidence            77777766654

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 [, , ].

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

Probab=98.48  E-value=0.00018  Score=52.05  Aligned_cols=173  Identities=15%  Similarity=0.056  Sum_probs=121.9

Q ss_pred             HHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 036731           37 ELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGG  116 (259)
Q Consensus        37 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  116 (259)
                      ++.+.+.......+......-...|+..+++++|++......      +......=+..+.+..+.+-|.+.+++|.+..
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id  167 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQID  167 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence            444444444333343333444457889999999999886521      33334444556677788999999999998753


Q ss_pred             CCCCCccchhHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 036731          117 VRPDAFCEINIVAYGCLIDGLCK----IGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG  192 (259)
Q Consensus       117 ~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  192 (259)
                      -         -.+.+-|..++.+    .+.+..|.-+|++|.++ .+|+..+.+-...++...|++++|..+++......
T Consensus       168 e---------d~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd  237 (299)
T KOG3081|consen  168 E---------DATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD  237 (299)
T ss_pred             h---------HHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            2         2566666666554    45789999999999875 46788899999999999999999999999999874


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHH-HHHHHHHHHhhC
Q 036731          193 VAPNCVIFTTLMPSFIRKNETS-KVIELLRSMDKR  226 (259)
Q Consensus       193 ~~p~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~  226 (259)
                       .-++.+...++.+-...|... -..+.+.++...
T Consensus       238 -~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  238 -AKDPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             -CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence             335677777776666666654 445666666654

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

Probab=98.46  E-value=3.2e-05  Score=66.00  Aligned_cols=201  Identities=11%  Similarity=0.088  Sum_probs=136.2

Q ss_pred             CchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCc-----
Q 036731           49 PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD-VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAF-----  122 (259)
Q Consensus        49 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----  122 (259)
                      .+...+..|+..+...+++++|.++.+...+.  .|+ ...|-.+...+.+.++.+.+..+  .+...-......     
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve~  104 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIVEH  104 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHHHH
Confidence            35678899999999999999999999977765  333 34444444466677766665554  222211100000     


Q ss_pred             -------cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 036731          123 -------CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAP  195 (259)
Q Consensus       123 -------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  195 (259)
                             ...+..++..+..+|-+.|+.+++..+|+++.+.. +-|..+.|.+...|... ++++|.+++.+....-+  
T Consensus       105 ~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i--  180 (906)
T PRK14720        105 ICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFI--  180 (906)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHH--
Confidence                   00123577788888999999999999999999987 34788999999999999 99999999998876521  


Q ss_pred             cHHHHHHHHHH---H--HhcCCHHHHHHHHHHHhhC-CCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          196 NCVIFTTLMPS---F--IRKNETSKVIELLRSMDKR-NVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       196 ~~~~~~~l~~~---~--~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      +..-|+.+...   +  ....+.+.-.++.+.+... +..--..++..+-..|...+++++++.+++.
T Consensus       181 ~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~  248 (906)
T PRK14720        181 KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKK  248 (906)
T ss_pred             hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHH
Confidence            22222222221   1  2234455556666665543 4444566777788888899999999988875

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.42  E-value=0.00051  Score=54.66  Aligned_cols=65  Identities=15%  Similarity=0.191  Sum_probs=53.2

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      -|+.+|+.||.-+... .++++.+.++++... .+-....|..-|..-...++++.+..+|.+....
T Consensus        18 ~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvk   82 (656)
T KOG1914|consen   18 YDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVK   82 (656)
T ss_pred             ccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3889999999887666 899999999999865 4556778888888888889999988888876644

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.41  E-value=0.0001  Score=55.27  Aligned_cols=243  Identities=9%  Similarity=0.030  Sum_probs=161.5

Q ss_pred             CCcccccccccCCHHHHHHHH---HHHHhcCChHHHHHHHHHHhhCCCCCchHhH-HHHHHHHhhcCChhHHHHHHHHHH
Q 036731            3 NGNREFGVVCKPNTVTYNTII---DGLCKEGFVDKAKELFLQMKDENINPNVVTY-NSLIHGFCYANDGNEAEYLFIEMM   78 (259)
Q Consensus         3 ~a~~~~~~~~~~~~~~~~~ll---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~~~~~~~~~~a~~~~~~~~   78 (259)
                      ||..-|...++.|+..|-++.   ..|...|+..-|+.=+.+..+.  +||-..- ..-...+.+.|.++.|..=|+...
T Consensus        56 DALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~Gele~A~~DF~~vl  133 (504)
T KOG0624|consen   56 DALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQGELEQAEADFDQVL  133 (504)
T ss_pred             HHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcccHHHHHHHHHHHH
Confidence            344444555666666666654   4566677777777666666654  5553221 223345678999999999999988


Q ss_pred             HcCCCCc------------hhhH--HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChH
Q 036731           79 DRGLQSD------------VVTF--NVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLK  144 (259)
Q Consensus        79 ~~~~~~~------------~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  144 (259)
                      ++....+            ...|  ...+..+...|+...|+.....+.+....       |...+..-..+|...|++.
T Consensus       134 ~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~W-------da~l~~~Rakc~i~~~e~k  206 (504)
T KOG0624|consen  134 QHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPW-------DASLRQARAKCYIAEGEPK  206 (504)
T ss_pred             hcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcc-------hhHHHHHHHHHHHhcCcHH
Confidence            7643211            1112  23345566778999999999998875433       6688888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHH----HHHH---------HHHHHhcC
Q 036731          145 NARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVI----FTTL---------MPSFIRKN  211 (259)
Q Consensus       145 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~----~~~l---------~~~~~~~~  211 (259)
                      .|+.=++...+..- -++.++-.+-..+...|+.+.++...++..+.  .||...    |..|         +......+
T Consensus       207 ~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~  283 (504)
T KOG0624|consen  207 KAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEK  283 (504)
T ss_pred             HHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            99988888776533 25566666777888899999988888887765  455432    2211         12334567


Q ss_pred             CHHHHHHHHHHHhhCCCc---cchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          212 ETSKVIELLRSMDKRNVM---PYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       212 ~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      +|.++.+.-+...+....   .....+..+-.++...|++.+|+...++
T Consensus       284 ~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~e  332 (504)
T KOG0624|consen  284 HWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKE  332 (504)
T ss_pred             hHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHH
Confidence            777777777776665433   1344566777788888888888776543

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

Probab=98.40  E-value=3.9e-07  Score=43.54  Aligned_cols=29  Identities=41%  Similarity=0.817  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCC
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDEN   46 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   46 (259)
                      +||.+|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56777777777777777777777776655

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

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.39  E-value=2e-05  Score=59.17  Aligned_cols=190  Identities=14%  Similarity=0.135  Sum_probs=115.8

Q ss_pred             HHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHH-----HHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHH
Q 036731           56 SLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVI-----MDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAY  130 (259)
Q Consensus        56 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  130 (259)
                      .|+-.|.++++..+|..+.+++.-.  .|-......+     ..-........-|.+.|+-.-..+..-+     ++.--
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecD-----TIpGR  362 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECD-----TIPGR  362 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccc-----cccch
Confidence            3445678889999998887665422  2222222222     2222223345667777776666665554     33445


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHH-HHHHHHHHh
Q 036731          131 GCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIF-TTLMPSFIR  209 (259)
Q Consensus       131 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~-~~l~~~~~~  209 (259)
                      .++..++.-..++++++..++.+...=..-|...+ .+.++.+..|++.+|+++|-.+....++ |..+| ..|.++|.+
T Consensus       363 QsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~  440 (557)
T KOG3785|consen  363 QSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIR  440 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHh
Confidence            56666777777788888888887765333344333 4778888888888998888777655544 34444 445578888


Q ss_pred             cCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          210 KNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       210 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                      .+.++.|+.++-.+...+  ..-.....+..-|.+.+.+--|.+.|.
T Consensus       441 nkkP~lAW~~~lk~~t~~--e~fsLLqlIAn~CYk~~eFyyaaKAFd  485 (557)
T KOG3785|consen  441 NKKPQLAWDMMLKTNTPS--ERFSLLQLIANDCYKANEFYYAAKAFD  485 (557)
T ss_pred             cCCchHHHHHHHhcCCch--hHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            888888887775543221  122234445566777777644444443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.36  E-value=0.00084  Score=56.47  Aligned_cols=200  Identities=12%  Similarity=0.092  Sum_probs=136.6

Q ss_pred             HHHHHHH--HHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 036731           19 YNTIIDG--LCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDEL   96 (259)
Q Consensus        19 ~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   96 (259)
                      |..++.+  ..+.|+.++|..+++.....+.. |..|...+-.+|...++.++|..+|++....  .|+......+..+|
T Consensus        44 ~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmay  120 (932)
T KOG2053|consen   44 YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAY  120 (932)
T ss_pred             HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHH
Confidence            3344444  35789999999888887766544 8888999999999999999999999998876  56677778888899


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC----------hHHHHHHHHHHHHcC-CCCChhhH
Q 036731           97 CKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK----------LKNARELSQSLTRAG-LMPNVVTY  165 (259)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~-~~~~~~~~  165 (259)
                      .+.+.+.+-.++--++.+.  .|.     ....+.++++.+.+.-.          ..-|.+.++.+.+.+ -.-+..-.
T Consensus       121 vR~~~yk~qQkaa~~LyK~--~pk-----~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~  193 (932)
T KOG2053|consen  121 VREKSYKKQQKAALQLYKN--FPK-----RAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEI  193 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHh--CCc-----ccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHH
Confidence            9988887655554444432  222     33677777777665431          234556666666554 21122222


Q ss_pred             HHHHHHHHhcCChhHHHHHH-HHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 036731          166 NITIHALCNDEQMDKAHDLF-LDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNV  228 (259)
Q Consensus       166 ~~li~~~~~~~~~~~a~~~~-~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  228 (259)
                      ..-...+...|++++|++++ ....+.-...+...-+.-+..+...+++.+..++..++..+|.
T Consensus       194 ~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~  257 (932)
T KOG2053|consen  194 ILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGN  257 (932)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCC
Confidence            23334456788899999999 4444443333444455667788889999999999999888763

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.35  E-value=0.00046  Score=61.02  Aligned_cols=232  Identities=9%  Similarity=-0.046  Sum_probs=147.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhCCCCCc----hHhHHHHHHHHhhcCChhHHHHHHHHHHHc----CCC-CchhhHHHHH
Q 036731           23 IDGLCKEGFVDKAKELFLQMKDENINPN----VVTYNSLIHGFCYANDGNEAEYLFIEMMDR----GLQ-SDVVTFNVIM   93 (259)
Q Consensus        23 l~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~   93 (259)
                      ...+...|+++.|...+++....-...+    ....+.+...+...|+++.|...+++....    |.. +...+...+.
T Consensus       459 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la  538 (903)
T PRK04841        459 AQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQS  538 (903)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHH
Confidence            3456689999999999998876311111    123455666778899999999999887643    111 1123455667


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhC----CCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCC--ChhhH
Q 036731           94 DELCKNRKMDEATRLLDLMIQG----GVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG--LMP--NVVTY  165 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~  165 (259)
                      ..+...|+++.|...+++....    +.. ..  ......+..+...+...|++++|...+++.....  ..+  ....+
T Consensus       539 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~-~~--~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~  615 (903)
T PRK04841        539 EILFAQGFLQAAYETQEKAFQLIEEQHLE-QL--PMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCL  615 (903)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhccc-cc--cHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHH
Confidence            7888999999999998876542    211 10  0122345566677888899999999998875431  112  23344


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcC--CCCcHH--HH--HHHHHHHHhcCCHHHHHHHHHHHhhCCCccc---hHHHH
Q 036731          166 NITIHALCNDEQMDKAHDLFLDMEVKG--VAPNCV--IF--TTLMPSFIRKNETSKVIELLRSMDKRNVMPY---ASILS  236 (259)
Q Consensus       166 ~~li~~~~~~~~~~~a~~~~~~~~~~~--~~p~~~--~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~  236 (259)
                      ..+...+...|+++.|...+.......  ......  ..  ...+..+...|+.+.|.+++...........   .....
T Consensus       616 ~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~  695 (903)
T PRK04841        616 AMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWR  695 (903)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHH
Confidence            445667788999999999998875431  111111  10  1122445568999999999877654221111   11234


Q ss_pred             HHHHHHHHhcccCCcchhhhc
Q 036731          237 IIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       237 ~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      .+..++...|+.++|...+.+
T Consensus       696 ~~a~~~~~~g~~~~A~~~l~~  716 (903)
T PRK04841        696 NIARAQILLGQFDEAEIILEE  716 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHH
Confidence            577778888999888887764

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.35  E-value=0.00065  Score=57.08  Aligned_cols=216  Identities=14%  Similarity=0.102  Sum_probs=143.3

Q ss_pred             HHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHH--HhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHH
Q 036731           26 LCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHG--FCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMD  103 (259)
Q Consensus        26 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  103 (259)
                      ....+++.+|.+....+.+.  .||. .|...+.+  ..+.|+.++|..+++.....+.. |..|...+-.+|.+.++.+
T Consensus        19 ~ld~~qfkkal~~~~kllkk--~Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKK--HPNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHH--CCCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhh
Confidence            34678899999999888776  3554 34444444  46899999999999888776655 8899999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC------
Q 036731          104 EATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQ------  177 (259)
Q Consensus       104 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~------  177 (259)
                      +|..+|++..+..  |      +......+..+|.+.+++.+-.++--++.+. .+-+...+-++++.....-.      
T Consensus        95 ~~~~~Ye~~~~~~--P------~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~  165 (932)
T KOG2053|consen   95 EAVHLYERANQKY--P------SEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELL  165 (932)
T ss_pred             HHHHHHHHHHhhC--C------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccc
Confidence            9999999998753  3      2367777888888888877655555555443 22345555566665554221      


Q ss_pred             ----hhHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhcCCHHHHHHHHH-HHhhCCCccchHHHHHHHHHHHHhcccCCc
Q 036731          178 ----MDKAHDLFLDMEVKG-VAPNCVIFTTLMPSFIRKNETSKVIELLR-SMDKRNVMPYASILSIIVDLLVKNEISLNS  251 (259)
Q Consensus       178 ----~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  251 (259)
                          ..-|.+.++.+.+.+ -.-+..-.......+...|++++|..++. ...+.-..-+...-+.-++.+...+++.+.
T Consensus       166 ~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l  245 (932)
T KOG2053|consen  166 DPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQEL  245 (932)
T ss_pred             cchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHH
Confidence                223555666666553 11122222233345567899999999994 344443333455555667777777777655


Q ss_pred             chh
Q 036731          252 IPQ  254 (259)
Q Consensus       252 ~~~  254 (259)
                      .++
T Consensus       246 ~~l  248 (932)
T KOG2053|consen  246 FEL  248 (932)
T ss_pred             HHH
Confidence            444

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.34  E-value=3.2e-05  Score=64.27  Aligned_cols=209  Identities=12%  Similarity=0.040  Sum_probs=125.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhC-C--------CCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDE-N--------INPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD   85 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~--------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~   85 (259)
                      +...|..+...|.+..+.+-|.-.+-.|... |        -.|+ .+-..........|-+++|+.+|.+-.+.     
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~-----  829 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKRY-----  829 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH-----
Confidence            4456777777777777766666555554321 0        0111 22222223335667777777777666543     


Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHH----------H
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLT----------R  155 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----------~  155 (259)
                          ..|=..|...|.+++|.++-+.=....+.         .||......+-..++.+.|++.|++..          .
T Consensus       830 ----DLlNKlyQs~g~w~eA~eiAE~~DRiHLr---------~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~  896 (1416)
T KOG3617|consen  830 ----DLLNKLYQSQGMWSEAFEIAETKDRIHLR---------NTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLK  896 (1416)
T ss_pred             ----HHHHHHHHhcccHHHHHHHHhhccceehh---------hhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHH
Confidence                33455677788888888776543222222         678788888888888888888876531          1


Q ss_pred             cC---------CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          156 AG---------LMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       156 ~~---------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      ..         -.-|...|.....-+...|+.+.|+.+|...++         |-.+++..+-.|+.++|.++-++-.  
T Consensus       897 e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~esg--  965 (1416)
T KOG3617|consen  897 EYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEESG--  965 (1416)
T ss_pred             hChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhcc--
Confidence            10         122455666666667778888888888876553         3345555555666766666654332  


Q ss_pred             CCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          227 NVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       227 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                          |......+.+.|...|++.+|+..|.+
T Consensus       966 ----d~AAcYhlaR~YEn~g~v~~Av~FfTr  992 (1416)
T KOG3617|consen  966 ----DKAACYHLARMYENDGDVVKAVKFFTR  992 (1416)
T ss_pred             ----cHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence                334555566667777777666666643

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.33  E-value=7.2e-05  Score=48.34  Aligned_cols=26  Identities=19%  Similarity=0.141  Sum_probs=10.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHH
Q 036731          130 YGCLIDGLCKIGKLKNARELSQSLTR  155 (259)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~  155 (259)
                      +..+..++...|+.++|...++++.+
T Consensus        79 ~~~~~~~~~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        79 LLKLGMSLQELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHH
Confidence            33333334444444444444444433

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.

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

Probab=98.32  E-value=0.00037  Score=56.46  Aligned_cols=227  Identities=14%  Similarity=0.073  Sum_probs=117.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK   98 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   98 (259)
                      |..++..| ..+++...+++.+...+. .+-...|.....-.+...|+-++|......-....+. +.+.|+.+.-.+..
T Consensus        11 F~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~   87 (700)
T KOG1156|consen   11 FRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRS   87 (700)
T ss_pred             HHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhh
Confidence            34444443 345566666666555552 3333444444444455566666666666555543322 45556666666666


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh
Q 036731           99 NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQM  178 (259)
Q Consensus        99 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  178 (259)
                      ..++++|++.|......  .|+     |...+.-+.-.-.+.|+++........+.+... -....|..+..+..-.|+.
T Consensus        88 dK~Y~eaiKcy~nAl~~--~~d-----N~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~-~~ra~w~~~Avs~~L~g~y  159 (700)
T KOG1156|consen   88 DKKYDEAIKCYRNALKI--EKD-----NLQILRDLSLLQIQMRDYEGYLETRNQLLQLRP-SQRASWIGFAVAQHLLGEY  159 (700)
T ss_pred             hhhHHHHHHHHHHHHhc--CCC-----cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhh-hhHHHHHHHHHHHHHHHHH
Confidence            66666666666665553  232     445555555555566666666666666555421 1344555556666666666


Q ss_pred             hHHHHHHHHHHhcC-CCCcHHHHHHHH------HHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCc
Q 036731          179 DKAHDLFLDMEVKG-VAPNCVIFTTLM------PSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNS  251 (259)
Q Consensus       179 ~~a~~~~~~~~~~~-~~p~~~~~~~l~------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  251 (259)
                      ..|..+++...+.. -.|+...+....      ......|.+++|.+.+..-... +......-..-...+.+.|+.++|
T Consensus       160 ~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA  238 (700)
T KOG1156|consen  160 KMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEA  238 (700)
T ss_pred             HHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhH
Confidence            66666666665542 234444443322      1233455555555555443322 111222233344455666666666


Q ss_pred             chhhhc
Q 036731          252 IPQFNR  257 (259)
Q Consensus       252 ~~~~~~  257 (259)
                      ..+|..
T Consensus       239 ~~~y~~  244 (700)
T KOG1156|consen  239 VKVYRR  244 (700)
T ss_pred             HHHHHH
Confidence            665543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.32  E-value=0.00046  Score=49.63  Aligned_cols=176  Identities=14%  Similarity=0.073  Sum_probs=132.3

Q ss_pred             hcCChhHHHHHHHHHHH---cC-CCCchhh-HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHH
Q 036731           63 YANDGNEAEYLFIEMMD---RG-LQSDVVT-FNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGL  137 (259)
Q Consensus        63 ~~~~~~~a~~~~~~~~~---~~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  137 (259)
                      ...+.++..+++.++..   +| ..++..+ |..++-+....|+.+.|...++++...-  |.+     ..+--.-...+
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S-----~RV~~lkam~l   96 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGS-----KRVGKLKAMLL   96 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCC-----hhHHHHHHHHH
Confidence            34567888888887763   34 4455443 4456667778899999999999988753  432     23433334445


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 036731          138 CKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVI  217 (259)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  217 (259)
                      -..|++++|.++++.+.+.+ +.|..++-.-+...-..|+..+|++-+.+..+. +..|...|.-+...|...|++++|.
T Consensus        97 Ea~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~  174 (289)
T KOG3060|consen   97 EATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAA  174 (289)
T ss_pred             HHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHH
Confidence            66799999999999999886 446777777777777888888999988888876 6789999999999999999999999


Q ss_pred             HHHHHHhhCCCccchHHHHHHHHHHHHhccc
Q 036731          218 ELLRSMDKRNVMPYASILSIIVDLLVKNEIS  248 (259)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  248 (259)
                      -.++++.-.. +.++..+..+.+.+.-.|..
T Consensus       175 fClEE~ll~~-P~n~l~f~rlae~~Yt~gg~  204 (289)
T KOG3060|consen  175 FCLEELLLIQ-PFNPLYFQRLAEVLYTQGGA  204 (289)
T ss_pred             HHHHHHHHcC-CCcHHHHHHHHHHHHHHhhH
Confidence            9999988653 33566677777776655543

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.31  E-value=6e-05  Score=56.69  Aligned_cols=130  Identities=12%  Similarity=0.067  Sum_probs=65.6

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH-cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHH
Q 036731           53 TYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK-NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYG  131 (259)
Q Consensus        53 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (259)
                      +|..+++...+.+..+.|..+|.+..+.+ ..+..+|......-.. .++.+.|.++|+...+.  .|.     +...|.
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~-----~~~~~~   74 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPS-----DPDFWL   74 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT------HHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCC-----CHHHHH
Confidence            45555566656666666666666665331 2234444444444222 34444466666655543  111     345556


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCh---hhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNV---VTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      ..++.+...++.+.|..+|++.... +.++.   ..|...+..-.+.|+.+.+..+.+++.+.
T Consensus        75 ~Y~~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   75 EYLDFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            6666666666666666666665543 22111   25555565555666666666666555554

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.

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

Probab=98.29  E-value=0.0011  Score=53.22  Aligned_cols=228  Identities=13%  Similarity=0.035  Sum_probs=134.7

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCC---------------------------CchHhHHHHHH---HHhhc
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENIN---------------------------PNVVTYNSLIH---GFCYA   64 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---------------------------~~~~~~~~li~---~~~~~   64 (259)
                      |..+...-.+.+-+.|++++|.++|+.+.+++..                           ....+|..+.+   .+...
T Consensus       109 ~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~  188 (652)
T KOG2376|consen  109 DDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIEN  188 (652)
T ss_pred             chHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhc
Confidence            3345666667788999999999999998554322                           01224444433   34567


Q ss_pred             CChhHHHHHHHHHHHcC-------CCCch------h-hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCc--------
Q 036731           65 NDGNEAEYLFIEMMDRG-------LQSDV------V-TFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAF--------  122 (259)
Q Consensus        65 ~~~~~a~~~~~~~~~~~-------~~~~~------~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--------  122 (259)
                      |++.+|+++++...+.+       -.-+.      . .-.-+.-.+...|+-++|..++..+.+....-.+.        
T Consensus       189 gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~~D~~~~Av~~NNL  268 (652)
T KOG2376|consen  189 GKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRNPADEPSLAVAVNNL  268 (652)
T ss_pred             ccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcCCCchHHHHHhcch
Confidence            99999999998883221       01011      1 11224455677899999999999888765432222        


Q ss_pred             --------------------------------------------------------------------------------
Q 036731          123 --------------------------------------------------------------------------------  122 (259)
Q Consensus       123 --------------------------------------------------------------------------------  122 (259)
                                                                                                      
T Consensus       269 va~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~a~lp~~~p~~~~~~ll~~  348 (652)
T KOG2376|consen  269 VALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELSASLPGMSPESLFPILLQE  348 (652)
T ss_pred             hhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhCCccCchHHHHHHHHH
Confidence                                                                                            


Q ss_pred             ---------------------cch--hHHHHHHHHHHHHhcCChHHHHHHHH--------HHHHcCCCCChhhHHHHHHH
Q 036731          123 ---------------------CEI--NIVAYGCLIDGLCKIGKLKNARELSQ--------SLTRAGLMPNVVTYNITIHA  171 (259)
Q Consensus       123 ---------------------~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~li~~  171 (259)
                                           ..|  ...+.-.++......|+++.|..++.        .+.+.+..|  .+...+...
T Consensus       349 ~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P--~~V~aiv~l  426 (652)
T KOG2376|consen  349 ATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLP--GTVGAIVAL  426 (652)
T ss_pred             HHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccCh--hHHHHHHHH
Confidence                                 111  22344455555666777777777777        444443333  344455555


Q ss_pred             HHhcCChhHHHHHHHHHHhc--CCCCcH----HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHh
Q 036731          172 LCNDEQMDKAHDLFLDMEVK--GVAPNC----VIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN  245 (259)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~--~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  245 (259)
                      +.+.++-+.|-.++.+...-  .-.+..    .++.-+...-.+.|+.++|..+++++.+.+ +++..+...++.+|++.
T Consensus       427 ~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~  505 (652)
T KOG2376|consen  427 YYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARL  505 (652)
T ss_pred             HHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc
Confidence            66666655555555554321  001111    223333344456788888888888888764 56777888888877764

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.29  E-value=0.00059  Score=50.16  Aligned_cols=176  Identities=11%  Similarity=0.061  Sum_probs=92.1

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhh---HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHH
Q 036731           54 YNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVT---FNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAY  130 (259)
Q Consensus        54 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  130 (259)
                      +-.....+...|++++|.+.|+.+......+ ...   .-.+..++.+.++++.|...+++..+......      ...+
T Consensus        35 ~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~------~~~~  107 (243)
T PRK10866         35 IYATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHP------NIDY  107 (243)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCC------chHH
Confidence            3334445567889999999999888763332 222   23466778889999999999988886532221      1333


Q ss_pred             HHHHHHHHh--c---------------CC---hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 036731          131 GCLIDGLCK--I---------------GK---LKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEV  190 (259)
Q Consensus       131 ~~l~~~~~~--~---------------~~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  190 (259)
                      ...+.+.+.  .               .+   ..+|+..|+.+.+.  -|++.             -..+|..-+..+..
T Consensus       108 a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S~-------------ya~~A~~rl~~l~~  172 (243)
T PRK10866        108 VLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNSQ-------------YTTDATKRLVFLKD  172 (243)
T ss_pred             HHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCCh-------------hHHHHHHHHHHHHH
Confidence            333333221  1               12   23455666666654  23332             12233333322222


Q ss_pred             cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC--CCccchHHHHHHHHHHHHhcccCCcchhh
Q 036731          191 KGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR--NVMPYASILSIIVDLLVKNEISLNSIPQF  255 (259)
Q Consensus       191 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  255 (259)
                      .   . ...--.+.+.|.+.|.+..|..-++.+++.  +.+........++.+|...|..++|..+.
T Consensus       173 ~---l-a~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~  235 (243)
T PRK10866        173 R---L-AKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVA  235 (243)
T ss_pred             H---H-HHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            1   0 011113345555566666666666665543  22223444555556666666665555443

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.29  E-value=3.7e-05  Score=47.12  Aligned_cols=96  Identities=15%  Similarity=0.095  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELC   97 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   97 (259)
                      +|..+...+...|++++|...+++..+.. +.+...+..+...+...+++++|.+.++...... +.+..++..+...+.
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   79 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHH
Confidence            45667788889999999999999998763 3344678888889999999999999999988764 334567888889999


Q ss_pred             HcCCHHHHHHHHHHHHhC
Q 036731           98 KNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~  115 (259)
                      ..|+++.|...+....+.
T Consensus        80 ~~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          80 KLGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHHhHHHHHHHHHHHHcc
Confidence            999999999999887653

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.28  E-value=6.1e-05  Score=48.69  Aligned_cols=100  Identities=17%  Similarity=-0.005  Sum_probs=80.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--CChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC--CCCcHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLM--PNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG--VAPNCVIFTTL  203 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~p~~~~~~~l  203 (259)
                      .++..+...+.+.|++++|...++.+......  .....+..+..++...|+++.|...++.+....  .......+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            56778888899999999999999999875321  113466678899999999999999999998752  11124567788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          204 MPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       204 ~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      ..++.+.|++++|.+.++++.+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            888999999999999999998874

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.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.27  E-value=5.4e-06  Score=50.14  Aligned_cols=80  Identities=18%  Similarity=0.172  Sum_probs=37.6

Q ss_pred             CChhHHHHHHHHHHHcCCC-CchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCCh
Q 036731           65 NDGNEAEYLFIEMMDRGLQ-SDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKL  143 (259)
Q Consensus        65 ~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  143 (259)
                      |+++.|+.+++++.+.... ++...+..+..+|.+.|++++|..++++ .+.  .+.     +......+..++.+.|++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~--~~~-----~~~~~~l~a~~~~~l~~y   74 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKL--DPS-----NPDIHYLLARCLLKLGKY   74 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTH--HHC-----HHHHHHHHHHHHHHTT-H
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCC--CCC-----CHHHHHHHHHHHHHhCCH
Confidence            4555555555555554321 1333344455555566666666555554 111  111     223333445555556666


Q ss_pred             HHHHHHHHH
Q 036731          144 KNARELSQS  152 (259)
Q Consensus       144 ~~a~~~~~~  152 (259)
                      ++|+.++++
T Consensus        75 ~eAi~~l~~   83 (84)
T PF12895_consen   75 EEAIKALEK   83 (84)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            666555543

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

Probab=98.26  E-value=1.4e-06  Score=41.53  Aligned_cols=29  Identities=34%  Similarity=0.762  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAG  157 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  157 (259)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555566666666666666665555544

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.

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.25  E-value=0.0006  Score=56.38  Aligned_cols=210  Identities=10%  Similarity=0.032  Sum_probs=148.5

Q ss_pred             ccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCC-chhhHH
Q 036731           12 CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQS-DVVTFN   90 (259)
Q Consensus        12 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~   90 (259)
                      ++.|...|..+--+....|+++.+-+.|++...- .--..+.|+.+-..+...|.-..|..+++.-......| +...+-
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 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPF-SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh-hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            4568889999999999999999999999988754 23356788999999999999999999998776553334 344444


Q ss_pred             HHHHHHHH-cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC-----------ChHHHHHHHHHHHHcCC
Q 036731           91 VIMDELCK-NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG-----------KLKNARELSQSLTRAGL  158 (259)
Q Consensus        91 ~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----------~~~~a~~~~~~~~~~~~  158 (259)
                      ..-..|.+ .+..++++.+-.++........  .......|..+.-+|...-           ...++.+.+++..+.+.
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~--~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~  475 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQR--SHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDP  475 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhh--hhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCC
Confidence            44444543 5677777777776665211100  0113466666666665322           25677788888877653


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          159 MPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      . |..+.-.+.--|...++.+.|.+..++..+.+-.-+...|..|.-.+...+++.+|..+.+...+
T Consensus       476 ~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~  541 (799)
T KOG4162|consen  476 T-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALE  541 (799)
T ss_pred             C-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            3 33333333344667789999999999999886677889999999999999999999999987654

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.25  E-value=5e-05  Score=46.52  Aligned_cols=96  Identities=14%  Similarity=0.057  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFI  208 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  208 (259)
                      ++..+...+...|++++|...+++..+... .+...+..+...+...+++++|.+.++...... +.+..++..+...+.
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   79 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHH
Confidence            355677788888999999999998877632 244667778888888899999999998887763 334467778888888


Q ss_pred             hcCCHHHHHHHHHHHhhC
Q 036731          209 RKNETSKVIELLRSMDKR  226 (259)
Q Consensus       209 ~~~~~~~a~~~~~~~~~~  226 (259)
                      ..|+++.|...+....+.
T Consensus        80 ~~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          80 KLGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHHhHHHHHHHHHHHHcc
Confidence            889999999988887654

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.25  E-value=2.3e-05  Score=58.95  Aligned_cols=128  Identities=9%  Similarity=0.032  Sum_probs=96.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh-cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN-DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPS  206 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  206 (259)
                      .+|..+++..-+.+..+.|..+|.+..+.+ ..+..+|......-.. .++.+.|..+|+...+. +..+...|...++.
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            578899999999999999999999998553 2245555555555333 56777799999998876 56677888999999


Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCccc---hHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          207 FIRKNETSKVIELLRSMDKRNVMPY---ASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       207 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      +...|+.+.|..+|++.... +.+.   ...|...++.=.+.|+.+.+.++.+++
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~  133 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRA  133 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999999999998865 3322   358889998888999888777776654

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.

>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=98.25  E-value=1.6e-05  Score=55.73  Aligned_cols=91  Identities=15%  Similarity=0.223  Sum_probs=78.8

Q ss_pred             ccCCHHHHHHHHHHHHh-----cCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhc----------------CChhHH
Q 036731           12 CKPNTVTYNTIIDGLCK-----EGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYA----------------NDGNEA   70 (259)
Q Consensus        12 ~~~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----------------~~~~~a   70 (259)
                      -..|-.+|..++..+.+     .|.++-....+..|.+-|+.-|..+|+.|++.+=+.                .+-+-|
T Consensus        43 ~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~  122 (228)
T PF06239_consen   43 QAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECA  122 (228)
T ss_pred             ccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHH
Confidence            46788899999999875     478888889999999999999999999999887542                234669


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHHcCCH
Q 036731           71 EYLFIEMMDRGLQSDVVTFNVIMDELCKNRKM  102 (259)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  102 (259)
                      ++++++|...|+-||..++..+++.+++.+..
T Consensus       123 i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  123 IDLLEQMENNGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHhccccHH
Confidence            99999999999999999999999999887764

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.24  E-value=0.0014  Score=52.08  Aligned_cols=204  Identities=9%  Similarity=0.014  Sum_probs=141.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHH------
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVI------   92 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------   92 (259)
                      ...+..+..+..+++.|++-+.......  -+..-++....+|...|.+......-....+.|.. ...-|+.+      
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALAR  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHH
Confidence            5567777888888999999988887764  35555666777888888888877777776666533 22233333      


Q ss_pred             -HHHHHHcCCHHHHHHHHHHHHhCCCCCCCc------------------cchh-HHHHHHHHHHHHhcCChHHHHHHHHH
Q 036731           93 -MDELCKNRKMDEATRLLDLMIQGGVRPDAF------------------CEIN-IVAYGCLIDGLCKIGKLKNARELSQS  152 (259)
Q Consensus        93 -~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------------------~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~  152 (259)
                       ..+|.+.++++.++..|.+.......|+..                  ..|. ..-.-.-...+.+.|++..|...|.+
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~Yte  383 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTE  383 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHH
Confidence             335556677888888888766544444321                  1111 11122225566788999999999999


Q ss_pred             HHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          153 LTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       153 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      +.+.. +-|...|....-+|.+.|.+..|+.=.+...+.. ++....|..=..++....++++|.+.|++.++.+
T Consensus       384 AIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  384 AIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             HHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            98886 3478899999999999999999988877777662 2333445555556666788999999999888764

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.24  E-value=0.00013  Score=55.03  Aligned_cols=196  Identities=12%  Similarity=0.092  Sum_probs=115.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHH-----hhcCChhHHHHHHHHHHHcCCCCchh-hHHH
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGF-----CYANDGNEAEYLFIEMMDRGLQSDVV-TFNV   91 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-----~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~   91 (259)
                      +--.|+--|.+.+++.+|..+..++.-  ..|-......+..+.     .......-|.+.|+-.-+++..-|.. --.+
T Consensus       287 ARlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQs  364 (557)
T KOG3785|consen  287 ARLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQS  364 (557)
T ss_pred             hhhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHH
Confidence            334456667889999999988877642  123332222222211     11122445666665554444333322 2233


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHH-HHH
Q 036731           92 IMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNI-TIH  170 (259)
Q Consensus        92 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-li~  170 (259)
                      +..++.-..++++.+-.+..+...-...+       ..--.+..+++..|++.+|+++|-.+....++ |..+|.+ +.+
T Consensus       365 mAs~fFL~~qFddVl~YlnSi~sYF~NdD-------~Fn~N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LAr  436 (557)
T KOG3785|consen  365 MASYFFLSFQFDDVLTYLNSIESYFTNDD-------DFNLNLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLAR  436 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCcc-------hhhhHHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHH
Confidence            45555556677888877777765433221       33346778888888888898888777655555 4555544 457


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCcHHHHH-HHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          171 ALCNDEQMDKAHDLFLDMEVKGVAPNCVIFT-TLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      +|.+.+.++.|++++-.+...   .+..+.. .+..-|.+.+.+--|.+.|+.+...
T Consensus       437 Cyi~nkkP~lAW~~~lk~~t~---~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l  490 (557)
T KOG3785|consen  437 CYIRNKKPQLAWDMMLKTNTP---SERFSLLQLIANDCYKANEFYYAAKAFDELEIL  490 (557)
T ss_pred             HHHhcCCchHHHHHHHhcCCc---hhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc
Confidence            778888888888777554422   2333333 3345677777777777777776654

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.23  E-value=0.00019  Score=54.21  Aligned_cols=203  Identities=12%  Similarity=0.085  Sum_probs=112.7

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHc----CCCC-chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHH
Q 036731           54 YNSLIHGFCYANDGNEAEYLFIEMMDR----GLQS-DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIV  128 (259)
Q Consensus        54 ~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  128 (259)
                      |......|...+++++|.+.|.+..+.    +-+. -...|.....+|.+. ++++|...+++....-..... ...-..
T Consensus        38 y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~-~~~aA~  115 (282)
T PF14938_consen   38 YEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGR-FSQAAK  115 (282)
T ss_dssp             HHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHH
T ss_pred             HHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCc-HHHHHH
Confidence            444445555666666666666554321    1111 122333333444333 666666666655421111000 011235


Q ss_pred             HHHHHHHHHHhc-CChHHHHHHHHHHHHc----CCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCC-----CCcH
Q 036731          129 AYGCLIDGLCKI-GKLKNARELSQSLTRA----GLM-PNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGV-----APNC  197 (259)
Q Consensus       129 ~~~~l~~~~~~~-~~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-----~p~~  197 (259)
                      .+..+...|... |++++|...|++..+.    |.. --..++..+...+.+.|++++|.++|++......     +.+.
T Consensus       116 ~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~  195 (282)
T PF14938_consen  116 CLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSA  195 (282)
T ss_dssp             HHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhH
Confidence            666777777777 8999999999887543    211 0133567778889999999999999999876422     2222


Q ss_pred             H-HHHHHHHHHHhcCCHHHHHHHHHHHhhCC--Ccc--chHHHHHHHHHHHHh--cccCCcchhhhcc
Q 036731          198 V-IFTTLMPSFIRKNETSKVIELLRSMDKRN--VMP--YASILSIIVDLLVKN--EISLNSIPQFNRQ  258 (259)
Q Consensus       198 ~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~~~~~~~--g~~~~a~~~~~~~  258 (259)
                      . .|-..+-++...|++..|.+.+++.....  +..  .......|+.++-..  ..+++++.-|+++
T Consensus       196 ~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  196 KEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHccc
Confidence            2 23334446677899999999999987542  222  345666777776543  2335566666554

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.22  E-value=0.00033  Score=59.79  Aligned_cols=198  Identities=12%  Similarity=0.111  Sum_probs=99.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDEL   96 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   96 (259)
                      ..|..+..+-.+.|.+.+|++-|-+.      -|+..|.-++..+.+.|.+++-.+++...++..-+|...  +.|+-+|
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~Ay 1176 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAY 1176 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHH
Confidence            34666666666666666665555332      255566666666667777776666665555554444333  3466666


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 036731           97 CKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDE  176 (259)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  176 (259)
                      ++.+++.+.++++.       .|      +..-...+.+-|...+.++.|.-+|..         ...|..|...++..|
T Consensus      1177 Akt~rl~elE~fi~-------gp------N~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~Lg 1234 (1666)
T KOG0985|consen 1177 AKTNRLTELEEFIA-------GP------NVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLG 1234 (1666)
T ss_pred             HHhchHHHHHHHhc-------CC------CchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHH
Confidence            66666555444331       11      223333444444444444444444432         222344444444444


Q ss_pred             ChhHHHHHHHH------------------------HHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccch
Q 036731          177 QMDKAHDLFLD------------------------MEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYA  232 (259)
Q Consensus       177 ~~~~a~~~~~~------------------------~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  232 (259)
                      ++..|.+.-++                        |....+-....-..-++..|...|-+++...+++...... ....
T Consensus      1235 eyQ~AVD~aRKAns~ktWK~VcfaCvd~~EFrlAQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLE-RAHM 1313 (1666)
T KOG0985|consen 1235 EYQGAVDAARKANSTKTWKEVCFACVDKEEFRLAQICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLE-RAHM 1313 (1666)
T ss_pred             HHHHHHHHhhhccchhHHHHHHHHHhchhhhhHHHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchh-HHHH
Confidence            44444333222                        1112222334445556666666777777666666544221 1234


Q ss_pred             HHHHHHHHHHHHh
Q 036731          233 SILSIIVDLLVKN  245 (259)
Q Consensus       233 ~~~~~l~~~~~~~  245 (259)
                      ..|+-+.-.|++-
T Consensus      1314 gmfTELaiLYsky 1326 (1666)
T KOG0985|consen 1314 GMFTELAILYSKY 1326 (1666)
T ss_pred             HHHHHHHHHHHhc
Confidence            5566666556553

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.20  E-value=0.0018  Score=51.72  Aligned_cols=186  Identities=9%  Similarity=0.102  Sum_probs=129.9

Q ss_pred             hHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhc---CChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHH
Q 036731           32 VDKAKELFLQMKDENINPNVVTYNSLIHGFCYA---NDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRL  108 (259)
Q Consensus        32 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  108 (259)
                      .+++..+++.....-...+..+|..+...--..   +..+.....++++...-..--..+|..+|+.-.+..-++.|..+
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~i  388 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKI  388 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHH
Confidence            345555565554432222333333333221111   13566777777776543222344677888888888899999999


Q ss_pred             HHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCChhHHHHHHHH
Q 036731          109 LDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVV-TYNITIHALCNDEQMDKAHDLFLD  187 (259)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~  187 (259)
                      |.+..+.+..+.     ++.+.++++..||. ++.+-|.++|+--.+.  -+|.. --...+.-+...++-..+..+|++
T Consensus       389 F~kaR~~~r~~h-----hVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr  460 (656)
T KOG1914|consen  389 FKKAREDKRTRH-----HVFVAAALMEYYCS-KDKETAFRIFELGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFER  460 (656)
T ss_pred             HHHHhhccCCcc-----hhhHHHHHHHHHhc-CChhHHHHHHHHHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHH
Confidence            999998877763     56888888888775 6788999999886554  23433 345567777888999999999999


Q ss_pred             HHhcCCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          188 MEVKGVAPN--CVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       188 ~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      ....++.|+  ...|..+++.-+.-|+...+.++-+++..
T Consensus       461 ~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  461 VLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            998866554  47899999999999999999998887654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.18  E-value=0.00033  Score=57.94  Aligned_cols=106  Identities=10%  Similarity=0.079  Sum_probs=46.0

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH
Q 036731          136 GLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSK  215 (259)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  215 (259)
                      +.....+|.+|+.+++.+.+...  -..-|..+...|...|+++.|.++|-+.         ..++-.|..|.+.|+|+.
T Consensus       741 aai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  741 AAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHH
Confidence            33344455555555555444321  2223444445555555555555554321         123333445555555555


Q ss_pred             HHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchh
Q 036731          216 VIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       216 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      |.++-.+..  |.......|..-.+-+-++|++.+|.++
T Consensus       810 a~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeql  846 (1636)
T KOG3616|consen  810 AFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQL  846 (1636)
T ss_pred             HHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhhe
Confidence            554443332  2222333343333444444444444433

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.18  E-value=0.00015  Score=50.19  Aligned_cols=114  Identities=12%  Similarity=-0.020  Sum_probs=76.1

Q ss_pred             hHHHHHHHHHHh-hCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCC--chhhHHHHHHHHHHcCCHHHHHHH
Q 036731           32 VDKAKELFLQMK-DENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQS--DVVTFNVIMDELCKNRKMDEATRL  108 (259)
Q Consensus        32 ~~~a~~~~~~~~-~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~  108 (259)
                      +..+...+..+. ..+..-....|..+...+...|++++|+..|+........+  ...++..+..++...|++++|+..
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            334444444443 22222345667777888888999999999999987664332  235788889999999999999999


Q ss_pred             HHHHHhCCCCCCCccchhHHHHHHHHHHHH-------hcCChHHHHHHHHH
Q 036731          109 LDLMIQGGVRPDAFCEINIVAYGCLIDGLC-------KIGKLKNARELSQS  152 (259)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~~~a~~~~~~  152 (259)
                      +++....  .|.     ...++..+...+.       ..|+++.|...+++
T Consensus        95 ~~~Al~~--~~~-----~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033         95 YFQALER--NPF-----LPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHh--CcC-----cHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            9988865  333     2355666666666       56666655444443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.17  E-value=0.00039  Score=48.37  Aligned_cols=90  Identities=12%  Similarity=-0.013  Sum_probs=68.0

Q ss_pred             hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc--hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHH
Q 036731           51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD--VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIV  128 (259)
Q Consensus        51 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  128 (259)
                      ...+..+...+...|++++|...|++.......+.  ...+..+..++.+.|++++|...+.+....  .|+     +..
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~-----~~~  107 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPK-----QPS  107 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--Ccc-----cHH
Confidence            44567777888889999999999998886543332  357788889999999999999999988874  333     446


Q ss_pred             HHHHHHHHHHhcCChHHHH
Q 036731          129 AYGCLIDGLCKIGKLKNAR  147 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~  147 (259)
                      .+..+..++...|+...+.
T Consensus       108 ~~~~lg~~~~~~g~~~~a~  126 (172)
T PRK02603        108 ALNNIAVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHHHHHHcCChHhHh
Confidence            7777778888877754444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.17  E-value=0.00011  Score=50.92  Aligned_cols=67  Identities=10%  Similarity=-0.129  Sum_probs=42.3

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      ...|..+...+...|++++|+..|++.......+..    ...++..+..++...|++++|...++.....
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~----~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYD----RSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchh----hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            445566666666777777777777776654322111    2346667777777777777777777776654

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.16  E-value=0.00056  Score=51.69  Aligned_cols=206  Identities=10%  Similarity=0.068  Sum_probs=130.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhC----CCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHH----cCCCCc-
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDE----NINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMD----RGLQSD-   85 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~-   85 (259)
                      ...|......|...|++++|.+.|.+....    +-+. -...|.....+|. ..++++|...+++..+    .| .|+ 
T Consensus        35 a~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k-~~~~~~Ai~~~~~A~~~y~~~G-~~~~  112 (282)
T PF14938_consen   35 ADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYK-KGDPDEAIECYEKAIEIYREAG-RFSQ  112 (282)
T ss_dssp             HHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH-HTTHHHHHHHHHHHHHHHHHCT--HHH
T ss_pred             HHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH-hhCHHHHHHHHHHHHHHHHhcC-cHHH
Confidence            456888888999999999999999887432    2111 1234455555554 4499999999988764    33 222 


Q ss_pred             -hhhHHHHHHHHHHc-CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC----
Q 036731           86 -VVTFNVIMDELCKN-RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM----  159 (259)
Q Consensus        86 -~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----  159 (259)
                       ...+..+...|-.. |+++.|++.|++..+.-...+. ...-...+..+...+.+.|++++|..+|++.......    
T Consensus       113 aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~-~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~  191 (282)
T PF14938_consen  113 AAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGS-PHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLL  191 (282)
T ss_dssp             HHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhccccc
Confidence             34677788888888 9999999999887642111110 1113467788889999999999999999998765322    


Q ss_pred             -CChh-hHHHHHHHHHhcCChhHHHHHHHHHHhc--CCCCc--HHHHHHHHHHHHh--cCCHHHHHHHHHHHh
Q 036731          160 -PNVV-TYNITIHALCNDEQMDKAHDLFLDMEVK--GVAPN--CVIFTTLMPSFIR--KNETSKVIELLRSMD  224 (259)
Q Consensus       160 -~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~p~--~~~~~~l~~~~~~--~~~~~~a~~~~~~~~  224 (259)
                       ++.. .|-..+-++...|++..|...+++....  ++..+  ......|+.++-.  ...++.+..-|+.+.
T Consensus       192 ~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  192 KYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             GHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             chhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence             1121 2333444667789999999999998755  23223  3456667777643  233455555554443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.15  E-value=7.3e-06  Score=49.54  Aligned_cols=81  Identities=19%  Similarity=0.197  Sum_probs=61.0

Q ss_pred             cCChHHHHHHHHHHhhCCC-CCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHH
Q 036731           29 EGFVDKAKELFLQMKDENI-NPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATR  107 (259)
Q Consensus        29 ~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  107 (259)
                      .|+++.|+.+++++.+... .++...+..+..++.+.|++++|..+++. .+.+.. +....-.+..+|...|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHHH
Confidence            6889999999999988732 12455566689999999999999999988 333222 33444456889999999999999


Q ss_pred             HHHH
Q 036731          108 LLDL  111 (259)
Q Consensus       108 ~~~~  111 (259)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            9875

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.15  E-value=0.00042  Score=48.16  Aligned_cols=92  Identities=8%  Similarity=-0.091  Sum_probs=63.3

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTY  165 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  165 (259)
                      ...+..+...+...|++++|...|++..+....+..    ....+..+..++.+.|++++|...+++....... +...+
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~----~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~  109 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPND----RSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSAL  109 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccch----HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHH
Confidence            445667777788888999998888888765333211    2357788888888888888888888888775322 44555


Q ss_pred             HHHHHHHHhcCChhHHH
Q 036731          166 NITIHALCNDEQMDKAH  182 (259)
Q Consensus       166 ~~li~~~~~~~~~~~a~  182 (259)
                      ..+...+...|+...+.
T Consensus       110 ~~lg~~~~~~g~~~~a~  126 (172)
T PRK02603        110 NNIAVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHHHHcCChHhHh
Confidence            66666666666654443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.14  E-value=0.00014  Score=48.69  Aligned_cols=98  Identities=11%  Similarity=-0.083  Sum_probs=80.8

Q ss_pred             hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHH
Q 036731           51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAY  130 (259)
Q Consensus        51 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  130 (259)
                      ......+...+...|++++|..+|+-+....+. +..-|-.|.-+|-..|++++|+..|......+  |+     ++..+
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~--~d-----dp~~~  106 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK--ID-----APQAP  106 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CC-----CchHH
Confidence            344555566677899999999999988876433 66777889999999999999999999988765  33     56899


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          131 GCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       131 ~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      ..+..++...|+.+.|.+.|+.....
T Consensus       107 ~~ag~c~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        107 WAAAECYLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999999999987764

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.13  E-value=8.9e-05  Score=54.52  Aligned_cols=196  Identities=8%  Similarity=0.045  Sum_probs=133.8

Q ss_pred             CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccch
Q 036731           46 NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEI  125 (259)
Q Consensus        46 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  125 (259)
                      |+....--+.+.+....+..+++.|++++....+...+ +......|..+|....++..|-..++++...-  |.     
T Consensus         5 g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~p~-~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~-----   76 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PE-----   76 (459)
T ss_pred             cccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hH-----
Confidence            33333444667777778889999999999888777422 67778889999999999999999999997642  32     


Q ss_pred             hHHHHHH-HHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHH--HHhcCChhHHHHHHHHHHhcCCCCcHHHHHH
Q 036731          126 NIVAYGC-LIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHA--LCNDEQMDKAHDLFLDMEVKGVAPNCVIFTT  202 (259)
Q Consensus       126 ~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  202 (259)
                       ..-|.. -...+.+.+.+..|+.+...|.+.   |....-..-+.+  ....+++..+..+.++....|   +..+.+.
T Consensus        77 -~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in  149 (459)
T KOG4340|consen   77 -LEQYRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQIN  149 (459)
T ss_pred             -HHHHHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhcc
Confidence             123322 256677889999999999988764   222221112222  235788888888888776433   3444444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          203 LMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       203 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ..-...+.|+++.|.+-|+...+.+---+...|+ +.-+..+.|+...|++...+
T Consensus       150 ~gCllykegqyEaAvqkFqaAlqvsGyqpllAYn-iALaHy~~~qyasALk~iSE  203 (459)
T KOG4340|consen  150 LGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYN-LALAHYSSRQYASALKHISE  203 (459)
T ss_pred             chheeeccccHHHHHHHHHHHHhhcCCCchhHHH-HHHHHHhhhhHHHHHHHHHH
Confidence            4445568999999999999988754333344565 44456667888888776543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.13  E-value=0.00079  Score=49.51  Aligned_cols=80  Identities=13%  Similarity=0.030  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 036731           89 FNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNIT  168 (259)
Q Consensus        89 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  168 (259)
                      +-.....+...|++++|.+.|+++......+.    .-....-.++.++.+.+++++|...+++..+....-...-+...
T Consensus        35 ~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         35 IYATAQQKLQDGNWKQAITQLEALDNRYPFGP----YSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCh----HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            33455566778999999999999987533221    12233456778899999999999999999886433222334444


Q ss_pred             HHHH
Q 036731          169 IHAL  172 (259)
Q Consensus       169 i~~~  172 (259)
                      +.+.
T Consensus       111 ~~g~  114 (243)
T PRK10866        111 MRGL  114 (243)
T ss_pred             HHHH
Confidence            4443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.10  E-value=0.00028  Score=55.11  Aligned_cols=94  Identities=9%  Similarity=-0.123  Sum_probs=80.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC
Q 036731          132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKN  211 (259)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  211 (259)
                      .....+...|++++|+..|++....... +...|..+..++...|++++|+..++++.... +.+...|..+..+|...|
T Consensus         7 ~~a~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          7 DKAKEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            3456677889999999999999987533 66788888899999999999999999998873 346778888999999999


Q ss_pred             CHHHHHHHHHHHhhCC
Q 036731          212 ETSKVIELLRSMDKRN  227 (259)
Q Consensus       212 ~~~~a~~~~~~~~~~~  227 (259)
                      ++++|...|++.++.+
T Consensus        85 ~~~eA~~~~~~al~l~  100 (356)
T PLN03088         85 EYQTAKAALEKGASLA  100 (356)
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            9999999999998764

>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=98.10  E-value=7.2e-05  Score=52.51  Aligned_cols=88  Identities=19%  Similarity=0.240  Sum_probs=74.3

Q ss_pred             hHHHHHHHHHHHHh-----cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc----------------CChhHHHHH
Q 036731          126 NIVAYGCLIDGLCK-----IGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND----------------EQMDKAHDL  184 (259)
Q Consensus       126 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----------------~~~~~a~~~  184 (259)
                      +..+|..+++.|.+     .|..+-....++.|.+.|+.-|..+|+.|+..+=+.                .+-+-|.++
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~l  125 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDL  125 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHH
Confidence            45788888888864     477888888999999999999999999999986542                234568999


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 036731          185 FLDMEVKGVAPNCVIFTTLMPSFIRKNET  213 (259)
Q Consensus       185 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  213 (259)
                      +++|...|+.||.+++..+++.+.+.+..
T Consensus       126 L~qME~~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  126 LEQMENNGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHHcCCCCcHHHHHHHHHHhccccHH
Confidence            99999999999999999999999777654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.09  E-value=0.00025  Score=55.37  Aligned_cols=91  Identities=15%  Similarity=0.059  Sum_probs=66.6

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 036731           93 MDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHAL  172 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  172 (259)
                      ...+...|++++|+..|++.....  |+     +...|..+..+|...|++++|+..+++...... .+...|..+..+|
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~--P~-----~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~   80 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD--PN-----NAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTAC   80 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHH
Confidence            445566778888888888877643  33     456777778888888888888888888877642 2555677777778


Q ss_pred             HhcCChhHHHHHHHHHHhc
Q 036731          173 CNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~  191 (259)
                      ...|++++|...|++....
T Consensus        81 ~~lg~~~eA~~~~~~al~l   99 (356)
T PLN03088         81 MKLEEYQTAKAALEKGASL   99 (356)
T ss_pred             HHhCCHHHHHHHHHHHHHh
Confidence            8888888888888887765

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=98.09  E-value=0.0015  Score=46.69  Aligned_cols=59  Identities=17%  Similarity=0.084  Sum_probs=29.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhC--CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDE--NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      ....+.+.|++.+|.+.|+.+...  +.+-.....-.++.++.+.|+++.|...++++.+.
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344455566666666666666543  11122333444555556666666666666665544

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.08  E-value=0.00021  Score=47.82  Aligned_cols=98  Identities=11%  Similarity=-0.074  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ....-.+...+...|++++|..+|+.+.... +-+..-|..|.-++-..|++++|+..|.......+ -|+..+-.+..+
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c  112 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHH
Confidence            3445556677788999999999999998764 33667778888899999999999999999998864 478888899999


Q ss_pred             HHHcCCHHHHHHHHHHHHhC
Q 036731           96 LCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~  115 (259)
                      +...|+.+.|.+.|+.....
T Consensus       113 ~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        113 YLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999987653

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.06  E-value=0.0017  Score=55.80  Aligned_cols=210  Identities=13%  Similarity=0.173  Sum_probs=132.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      |+..|.-++....+.|.+++-.+.+...++..-.|...  +.||-+|++.+++.+..+++       .-||......+.+
T Consensus      1132 Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGd 1202 (1666)
T KOG0985|consen 1132 DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGD 1202 (1666)
T ss_pred             CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhH
Confidence            77889999999999999999999998887775555544  57888999999988765554       2356666777777


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHH--------------------
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLT--------------------  154 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------------------  154 (259)
                      -|...+.++.|.-+|..+               .-|..+...+...|+++.|.+.-++..                    
T Consensus      1203 rcf~~~~y~aAkl~y~~v---------------SN~a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaCvd~~EFrl 1267 (1666)
T KOG0985|consen 1203 RCFEEKMYEAAKLLYSNV---------------SNFAKLASTLVYLGEYQGAVDAARKANSTKTWKEVCFACVDKEEFRL 1267 (1666)
T ss_pred             HHhhhhhhHHHHHHHHHh---------------hhHHHHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHhchhhhhH
Confidence            788888888777666543               345556666666666655554433221                    


Q ss_pred             ----HcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCcc
Q 036731          155 ----RAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP  230 (259)
Q Consensus       155 ----~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  230 (259)
                          ...+.....-...++.-|...|-+++...+++...... +..-..|+-|.-.|++- ++++..+.++-.-.+    
T Consensus      1268 AQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLE-RAHMgmfTELaiLYsky-kp~km~EHl~LFwsR---- 1341 (1666)
T KOG0985|consen 1268 AQICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLE-RAHMGMFTELAILYSKY-KPEKMMEHLKLFWSR---- 1341 (1666)
T ss_pred             HHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchh-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHh----
Confidence                11112223334556777777777777777776654321 22334566665555543 455555544433221    


Q ss_pred             chHHHHHHHHHHHHhcccCCcchhhh
Q 036731          231 YASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       231 ~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                        .-...+++++.+...|.+..-+|.
T Consensus      1342 --vNipKviRA~eqahlW~ElvfLY~ 1365 (1666)
T KOG0985|consen 1342 --VNIPKVIRAAEQAHLWSELVFLYD 1365 (1666)
T ss_pred             --cchHHHHHHHHHHHHHHHHHHHHH
Confidence              123357777777777766655544

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.02  E-value=0.0002  Score=59.22  Aligned_cols=108  Identities=17%  Similarity=0.176  Sum_probs=70.4

Q ss_pred             HHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHH
Q 036731           59 HGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLC  138 (259)
Q Consensus        59 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  138 (259)
                      .+......+.+|+.+++.+.+..  .....|..+...|+..|+++.|.++|-+.               ..++-.|..|.
T Consensus       740 eaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---------------~~~~dai~my~  802 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---------------DLFKDAIDMYG  802 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------------chhHHHHHHHh
Confidence            34455667777888877777652  23445777888888888888888888543               45667788888


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHH
Q 036731          139 KIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLF  185 (259)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  185 (259)
                      +.|+|+.|.++-.+...  .......|..-..-+-..|++.+|.+++
T Consensus       803 k~~kw~da~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  803 KAGKWEDAFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             ccccHHHHHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            88888888887766532  2334444544444445555555555443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.02  E-value=0.0016  Score=53.39  Aligned_cols=145  Identities=12%  Similarity=0.039  Sum_probs=100.3

Q ss_pred             CCCCchhhHHHHHHHHHHc--C---CHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC--------ChHHHH
Q 036731           81 GLQSDVVTFNVIMDELCKN--R---KMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG--------KLKNAR  147 (259)
Q Consensus        81 ~~~~~~~~~~~l~~~~~~~--~---~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~a~  147 (259)
                      +.+.+...|...+++....  +   +...|..+|++..+.  .|+     ....|..+..++....        ++..+.
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~-----~a~a~A~la~~~~~~~~~~~~~~~~l~~a~  404 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPD-----FTYAQAEKALADIVRHSQQPLDEKQLAALS  404 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCC-----cHHHHHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            3456778888888875432  2   367899999999875  454     3455665555443321        123344


Q ss_pred             HHHHHHHHc-CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          148 ELSQSLTRA-GLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       148 ~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      +..+..... ....+...|..+.-.....|++++|...+++..+.  .|+...|..+...+...|+.++|.+.+++....
T Consensus       405 ~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        405 TELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             HHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            444443332 12334567777766677789999999999999987  578889999999999999999999999998765


Q ss_pred             CCccchHHHH
Q 036731          227 NVMPYASILS  236 (259)
Q Consensus       227 ~~~~~~~~~~  236 (259)
                        .|...+|.
T Consensus       483 --~P~~pt~~  490 (517)
T PRK10153        483 --RPGENTLY  490 (517)
T ss_pred             --CCCCchHH
Confidence              44444443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.01  E-value=0.0011  Score=54.18  Aligned_cols=144  Identities=13%  Similarity=0.005  Sum_probs=100.1

Q ss_pred             CCCCchHhHHHHHHHHhhcC-----ChhHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHHcC--------CHHHHHHHHHH
Q 036731           46 NINPNVVTYNSLIHGFCYAN-----DGNEAEYLFIEMMDRGLQSD-VVTFNVIMDELCKNR--------KMDEATRLLDL  111 (259)
Q Consensus        46 ~~~~~~~~~~~li~~~~~~~-----~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~--------~~~~a~~~~~~  111 (259)
                      +.+.|...|...+++.....     +...|..+|++..+.  .|+ ...+..+..++....        +...+.+...+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            44667888988888754432     366899999999987  444 445554444433221        22334444444


Q ss_pred             HHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          112 MIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      .......+.     +...|..+.-.+...|++++|...+++....+  |+...|..+...+...|+.++|.+.+++....
T Consensus       410 a~al~~~~~-----~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        410 IVALPELNV-----LPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             hhhcccCcC-----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            333222222     34778888777778899999999999999875  68889999999999999999999999998876


Q ss_pred             CCCCcHHHH
Q 036731          192 GVAPNCVIF  200 (259)
Q Consensus       192 ~~~p~~~~~  200 (259)
                        .|...+|
T Consensus       483 --~P~~pt~  489 (517)
T PRK10153        483 --RPGENTL  489 (517)
T ss_pred             --CCCCchH
Confidence              4554454

>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=98.00  E-value=0.00026  Score=46.10  Aligned_cols=91  Identities=10%  Similarity=-0.006  Sum_probs=63.4

Q ss_pred             chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC---------CCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 036731           85 DVVTFNVIMDELCKNRKMDEATRLLDLMIQGG---------VRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTR  155 (259)
Q Consensus        85 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  155 (259)
                      |..++..++.++++.|+.+....+++..-..+         ..++....|+..+..+++.+|+..|++..|.++.+.+.+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            34566677777777777777777666553222         344444667888888888888888888888888888765


Q ss_pred             -cCCCCChhhHHHHHHHHHhc
Q 036731          156 -AGLMPNVVTYNITIHALCND  175 (259)
Q Consensus       156 -~~~~~~~~~~~~li~~~~~~  175 (259)
                       .+++.+..+|..|++-+...
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHHh
Confidence             46666777888888765543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.99  E-value=0.0015  Score=55.86  Aligned_cols=214  Identities=11%  Similarity=-0.016  Sum_probs=134.9

Q ss_pred             hHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHH
Q 036731           32 VDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDL  111 (259)
Q Consensus        32 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  111 (259)
                      ...|...|-+..+.... =...|..|...|+...+...|.+.|+...+.... +...+....+.|++..+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld~~-~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVS-LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            55555555554443211 2456777888887777888888888888766422 567777888888888888888888433


Q ss_pred             HHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          112 MIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      ..+.  .|-   .....-|....-.|...++...+..-|+......+. |...|..+..+|..+|++..|.++|.+....
T Consensus       552 ~~qk--a~a---~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L  625 (1238)
T KOG1127|consen  552 AAQK--APA---FACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL  625 (1238)
T ss_pred             Hhhh--chH---HHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc
Confidence            3222  111   011233334445567778888888888887776544 7778888899999999999999999887765


Q ss_pred             CCCCcHHHHHHHHH--HHHhcCCHHHHHHHHHHHhhC------CCccchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          192 GVAPNCVIFTTLMP--SFIRKNETSKVIELLRSMDKR------NVMPYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       192 ~~~p~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                        .|+. +|.....  ..+..|.+.++...+......      +...-..++......+...|-...|..+++
T Consensus       626 --rP~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~e  695 (1238)
T KOG1127|consen  626 --RPLS-KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFE  695 (1238)
T ss_pred             --CcHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHH
Confidence              4543 3333332  234568888888877765531      112234445555555555555555555544

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.95  E-value=0.0016  Score=42.02  Aligned_cols=17  Identities=35%  Similarity=0.348  Sum_probs=6.6

Q ss_pred             HHHHcCCHHHHHHHHHH
Q 036731           95 ELCKNRKMDEATRLLDL  111 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~  111 (259)
                      .+...|++++|..++++
T Consensus        47 tlr~LG~~deA~~~L~~   63 (120)
T PF12688_consen   47 TLRNLGRYDEALALLEE   63 (120)
T ss_pred             HHHHcCCHHHHHHHHHH
Confidence            33333333333333333

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.92  E-value=0.0018  Score=41.72  Aligned_cols=92  Identities=17%  Similarity=0.102  Sum_probs=46.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC----hhhHHH
Q 036731           92 IMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN----VVTYNI  167 (259)
Q Consensus        92 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~  167 (259)
                      +..++-..|+.++|+.+|++....|.....    -...+..+...+...|++++|..++++.....  |+    ......
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~----~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f   80 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGAD----RRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVF   80 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchH----HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHH
Confidence            334455566666666666666655544321    23455555566666666666666666555431  22    111111


Q ss_pred             HHHHHHhcCChhHHHHHHHHHH
Q 036731          168 TIHALCNDEQMDKAHDLFLDME  189 (259)
Q Consensus       168 li~~~~~~~~~~~a~~~~~~~~  189 (259)
                      +..++...|+.++|...+-...
T Consensus        81 ~Al~L~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   81 LALALYNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHH
Confidence            2234445556666555554433

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.90  E-value=0.0043  Score=48.65  Aligned_cols=78  Identities=17%  Similarity=0.247  Sum_probs=62.2

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      .|+.+|-.|+.-+...+..++..+++++|... .+-=..+|..-|.+=....++..+..+|.+.......  ...|...+
T Consensus        40 tnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~--ldLW~lYl  116 (660)
T COG5107          40 TNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLN--LDLWMLYL  116 (660)
T ss_pred             hhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhcc--HhHHHHHH
Confidence            47889999999999999999999999999754 4555678888888777889999999999998876544  33444443


Q ss_pred             H
Q 036731           94 D   94 (259)
Q Consensus        94 ~   94 (259)
                      .
T Consensus       117 ~  117 (660)
T COG5107         117 E  117 (660)
T ss_pred             H
Confidence            3

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.85  E-value=0.0015  Score=44.09  Aligned_cols=59  Identities=19%  Similarity=0.206  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDM  188 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  188 (259)
                      +...++..+...|+++.|..+.+.+.... +.+...|..+|.++...|+...|.+.|+.+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            33344444444555555555555544442 124444555555555555555555554443

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.84  E-value=0.0017  Score=55.46  Aligned_cols=163  Identities=9%  Similarity=0.038  Sum_probs=118.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcC-CCCchhhHHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG-LQSDVVTFNVIMDE   95 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~   95 (259)
                      ..|..|...|...-+..+|.+.|+...+.. ..+..........|++..+++.|..+.-..-+.. ...-...|....-.
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPY  571 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccc
Confidence            568888888888888899999999988764 3467788889999999999999998833322221 01112233334455


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHH--HHH
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIH--ALC  173 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~--~~~  173 (259)
                      |...++...|..-|+.....  .|.     |...|..+..+|.+.|++..|.++|.+....  .|+. +|...-.  ..+
T Consensus       572 yLea~n~h~aV~~fQsALR~--dPk-----D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s-~y~~fk~A~~ec  641 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRT--DPK-----DYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS-KYGRFKEAVMEC  641 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcC--Cch-----hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh-HHHHHHHHHHHH
Confidence            67788899999999887764  333     7799999999999999999999999887764  3432 3433322  345


Q ss_pred             hcCChhHHHHHHHHHHh
Q 036731          174 NDEQMDKAHDLFLDMEV  190 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~  190 (259)
                      ..|.+.++...+.....
T Consensus       642 d~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  642 DNGKYKEALDALGLIIY  658 (1238)
T ss_pred             HhhhHHHHHHHHHHHHH
Confidence            67888888888887654

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.82  E-value=0.002  Score=51.22  Aligned_cols=193  Identities=10%  Similarity=0.081  Sum_probs=135.4

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHH-
Q 036731           54 YNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC-  132 (259)
Q Consensus        54 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-  132 (259)
                      ...+.++..+..+++.|++-+....+..  -+..-++....+|...|.+...........+.|...       ..-|+. 
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~-------rad~klI  297 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGREL-------RADYKLI  297 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHH-------HHHHHHH
Confidence            4556777788889999999999888775  466667778888999888888777776666555432       123333 


Q ss_pred             ------HHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH-------------------------HHHHHHHHhcCChhHH
Q 036731          133 ------LIDGLCKIGKLKNARELSQSLTRAGLMPNVVTY-------------------------NITIHALCNDEQMDKA  181 (259)
Q Consensus       133 ------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------------------------~~li~~~~~~~~~~~a  181 (259)
                            +..+|.+.++++.+...|++....-..|+..+-                         ..-...+.+.|++..|
T Consensus       298 ak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~A  377 (539)
T KOG0548|consen  298 AKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEA  377 (539)
T ss_pred             HHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHH
Confidence                  333566677888899888876554333332211                         1113346678889999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          182 HDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       182 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ...|.+++... +-|...|..-.-+|.+.|.+..|.+=.+..++.+ ++....|..-..++....++++|++.|.+
T Consensus       378 v~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~e  451 (539)
T KOG0548|consen  378 VKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQE  451 (539)
T ss_pred             HHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999988874 5567788888889999999988888877777664 44566666667777777777777777653

>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=97.82  E-value=0.00012  Score=42.17  Aligned_cols=52  Identities=17%  Similarity=0.219  Sum_probs=28.8

Q ss_pred             hcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          174 NDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      ..|++++|...|+++.... +-+...+..+..+|.+.|++++|.++++++...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4556666666666655542 224455555566666666666666666665544

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.81  E-value=0.00061  Score=50.21  Aligned_cols=101  Identities=18%  Similarity=0.139  Sum_probs=82.2

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND  175 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  175 (259)
                      ..+.+++.+|+..|.+.++.  .|.     |.+.|..-..+|++.|+++.|.+-.+.....+.. ...+|..|-.+|...
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l--~P~-----nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~  162 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIEL--DPT-----NAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLAL  162 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhc--CCC-----cchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHcc
Confidence            56788999999999998875  444     6688999999999999999999888888776422 567899999999999


Q ss_pred             CChhHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 036731          176 EQMDKAHDLFLDMEVKGVAPNCVIFTTLMPS  206 (259)
Q Consensus       176 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  206 (259)
                      |++++|.+.|++.++.  .|+-.+|..=+..
T Consensus       163 gk~~~A~~aykKaLel--dP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  163 GKYEEAIEAYKKALEL--DPDNESYKSNLKI  191 (304)
T ss_pred             CcHHHHHHHHHhhhcc--CCCcHHHHHHHHH
Confidence            9999999999988865  6777776655443

>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=97.79  E-value=0.00019  Score=41.29  Aligned_cols=64  Identities=19%  Similarity=0.202  Sum_probs=51.8

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHH
Q 036731          138 CKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLM  204 (259)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  204 (259)
                      ...|++++|..+|+++...... +...+..+..++.+.|++++|..+++++...  .|+...|..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence            5679999999999999887433 7778888999999999999999999999987  66655554443

...

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.78  E-value=0.0065  Score=44.29  Aligned_cols=135  Identities=9%  Similarity=-0.048  Sum_probs=75.0

Q ss_pred             HHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHH
Q 036731           55 NSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLI  134 (259)
Q Consensus        55 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  134 (259)
                      +.+++++...+.+.-...++.+..+...+.++.....|++.-.+.||.+.|...|++..+..-..+. ......+.....
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~-~q~~~~V~~n~a  259 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDG-LQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhc-cchhHHHHhhhh
Confidence            4445555556666666667777666655556666666777777777777777777765543322221 001112223333


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          135 DGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       135 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      ..|.-.+++..|...+.++...+.. |....|.-.-+..-.|+...|.+.++.|++.
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            4445556666666666666554322 3333343333444456667777777777665

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.78  E-value=0.0011  Score=49.00  Aligned_cols=105  Identities=11%  Similarity=0.013  Sum_probs=85.8

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH
Q 036731          135 DGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETS  214 (259)
Q Consensus       135 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  214 (259)
                      .-..+.+++++|+..|.+.++.... |.+-|..-..+|++.|.++.|.+-.+.....+ +-...+|..|..+|...|+++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHH
Confidence            3456788999999999999997533 77788888999999999999999988888763 223578999999999999999


Q ss_pred             HHHHHHHHHhhCCCccchHHHHHHHHHHH
Q 036731          215 KVIELLRSMDKRNVMPYASILSIIVDLLV  243 (259)
Q Consensus       215 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  243 (259)
                      +|.+.|+..++.  .|+..+|..=+....
T Consensus       167 ~A~~aykKaLel--dP~Ne~~K~nL~~Ae  193 (304)
T KOG0553|consen  167 EAIEAYKKALEL--DPDNESYKSNLKIAE  193 (304)
T ss_pred             HHHHHHHhhhcc--CCCcHHHHHHHHHHH
Confidence            999999998865  677777776555443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.74  E-value=0.0015  Score=54.82  Aligned_cols=61  Identities=16%  Similarity=0.057  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcC--------------------CCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAG--------------------LMPNVVTYNITIHALCNDEQMDKAHDLFLD  187 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  187 (259)
                      ..|.-.....-..|+.+.|+.+|...++.=                    -.-|......+.+.|...|++.+|..+|.+
T Consensus       913 ~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR~YEn~g~v~~Av~FfTr  992 (1416)
T KOG3617|consen  913 SLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESGDKAACYHLARMYENDGDVVKAVKFFTR  992 (1416)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcccHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            445555555555566666665555443210                    012445555666777777777777776655


Q ss_pred             H
Q 036731          188 M  188 (259)
Q Consensus       188 ~  188 (259)
                      .
T Consensus       993 A  993 (1416)
T KOG3617|consen  993 A  993 (1416)
T ss_pred             H
Confidence            4

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.74  E-value=0.0003  Score=40.03  Aligned_cols=57  Identities=18%  Similarity=0.120  Sum_probs=30.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731           23 IDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus        23 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      ...+.+.|++++|.+.|++..+.. +-+...+..+..++...|++++|...|+++.+.
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344555566666666666655543 224555555555555666666666666555543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.73  E-value=0.00052  Score=39.03  Aligned_cols=58  Identities=21%  Similarity=0.223  Sum_probs=39.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731           92 IMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus        92 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      +...+...|++++|...|+++.+..  |+     +...+..+..++...|++++|...|+++.+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~--P~-----~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD--PD-----NPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS--TT-----HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455667777777777777777653  33     5677777777777777777777777777654

>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=97.71  E-value=0.00046  Score=39.77  Aligned_cols=63  Identities=19%  Similarity=0.178  Sum_probs=35.0

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC-ChHHHHHHHHHHHH
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG-KLKNARELSQSLTR  155 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~  155 (259)
                      ..+|..+...+...|++++|+..|.+..+.+  |+     +...|..+..++...| ++++|+..+++..+
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p~-----~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD--PN-----NAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--TT-----HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CC-----CHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            3445555555666666666666666555532  22     4455555666666665 45666665555544

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.71  E-value=0.0035  Score=46.63  Aligned_cols=98  Identities=13%  Similarity=0.056  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh----hhHHHHHHHHHhcCChhHHHHHHHHHHhc--CCCCcHHHH
Q 036731          127 IVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNV----VTYNITIHALCNDEQMDKAHDLFLDMEVK--GVAPNCVIF  200 (259)
Q Consensus       127 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~p~~~~~  200 (259)
                      ...|...+....+.|++++|...|+.+.+.-  |+.    ..+-.+..+|...|++++|...|+.+.+.  +-+.....+
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence            3566666666677899999999999998863  343    47788889999999999999999999865  111224555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          201 TTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       201 ~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      ..+...+...|+.++|.++++++.+.
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            56677788999999999999999876

>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=97.69  E-value=0.00039  Score=40.10  Aligned_cols=61  Identities=13%  Similarity=0.087  Sum_probs=27.8

Q ss_pred             HhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcC-CHHHHHHHHHHHH
Q 036731           52 VTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNR-KMDEATRLLDLMI  113 (259)
Q Consensus        52 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~  113 (259)
                      .+|..+...+...|++++|+..|++..+... .+...|..+..++...| ++++|++.+++..
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p-~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELDP-NNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHST-THHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            3444444444444555555555544444421 13444444444444444 3445544444443

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.68  E-value=0.014  Score=44.79  Aligned_cols=106  Identities=12%  Similarity=0.205  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFI  208 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  208 (259)
                      +.+.-+.-+...|+...|.++-++..    .|+..-|..-+.+++..++|++-..+-..      +-++.-|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            44555666777888888887766653    36888888999999999999887776432      124467888999999


Q ss_pred             hcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchh
Q 036731          209 RKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       209 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      +.|+..+|..++..+     +     +..-+..|.+.|++.+|.+.
T Consensus       249 ~~~~~~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HCCCHHHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHH
Confidence            999999988888762     1     14456677888888777665

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

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.66  E-value=0.0038  Score=46.45  Aligned_cols=91  Identities=12%  Similarity=0.022  Sum_probs=42.6

Q ss_pred             hhcCChhHHHHHHHHHHHcCCCCc--hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh
Q 036731           62 CYANDGNEAEYLFIEMMDRGLQSD--VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK  139 (259)
Q Consensus        62 ~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  139 (259)
                      .+.|++++|...|+.+.+......  ...+-.+..+|...|++++|...|+.+.+.-  |+.  ......+..+..++..
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~y--P~s--~~~~dAl~klg~~~~~  229 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNY--PKS--PKAADAMFKVGVIMQD  229 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCC--cchhHHHHHHHHHHHH
Confidence            444555555555555554421110  1234445555555555555555555555321  110  0022333344444555


Q ss_pred             cCChHHHHHHHHHHHHc
Q 036731          140 IGKLKNARELSQSLTRA  156 (259)
Q Consensus       140 ~~~~~~a~~~~~~~~~~  156 (259)
                      .|+.++|..+|+.+.+.
T Consensus       230 ~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        230 KGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            55555555555555543

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.63  E-value=0.00064  Score=45.86  Aligned_cols=67  Identities=21%  Similarity=0.279  Sum_probs=39.5

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHH-----hCCCCCC
Q 036731           53 TYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMI-----QGGVRPD  120 (259)
Q Consensus        53 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~  120 (259)
                      ....++..+...|+++.|..+.+.+.... +.+...|..+|.+|...|+...|.++|+++.     +.|+.|+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps  135 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPS  135 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcC
Confidence            45556666667777777777777776653 3356677777777777777777777776653     3466665

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.62  E-value=0.013  Score=42.77  Aligned_cols=133  Identities=12%  Similarity=0.081  Sum_probs=96.1

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHH
Q 036731           88 TFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNI  167 (259)
Q Consensus        88 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  167 (259)
                      ..+.++.+..-.+.+.-....+.++++.....      ++.....+.+.-.+.||.+.|...|++..+..-..+..+.+.
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~------~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~  252 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQ------EPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKI  252 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcc------cHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhH
Confidence            34556666777788888899999998854333      558999999999999999999999998876543444444444


Q ss_pred             H-----HHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          168 T-----IHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       168 l-----i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      +     ...+.-++++..|...+.+....+ ..|+...|.-.-+..-.|+...|.+.+..|....
T Consensus       253 ~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~  316 (366)
T KOG2796|consen  253 MVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQD  316 (366)
T ss_pred             HHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            3     334556788888888888887663 2344444443334445789999999999998764

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.58  E-value=0.011  Score=40.85  Aligned_cols=155  Identities=10%  Similarity=0.013  Sum_probs=91.4

Q ss_pred             HHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHH
Q 036731           58 IHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGL  137 (259)
Q Consensus        58 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  137 (259)
                      ..+..+.=+++...+-..+-.  ..-|+...--.|..+....|+..+|...|++.... +..+     |......+.++.
T Consensus        63 ~~a~~q~ldP~R~~Rea~~~~--~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~-----d~a~lLglA~Aq  134 (251)
T COG4700          63 LMALQQKLDPERHLREATEEL--AIAPTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAH-----DAAMLLGLAQAQ  134 (251)
T ss_pred             HHHHHHhcChhHHHHHHHHHH--hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCC-----CHHHHHHHHHHH
Confidence            334444445544433222222  23456666666777777777777777777776543 3332     446677777777


Q ss_pred             HhcCChHHHHHHHHHHHHcCCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHH
Q 036731          138 CKIGKLKNARELSQSLTRAGLM-PNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKV  216 (259)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  216 (259)
                      ...+++..|...++.+.+.... -+..+.-.+.+.+...|.+.+|+.-|+.....  .|+...-......+.+.|+.+++
T Consensus       135 fa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea  212 (251)
T COG4700         135 FAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREA  212 (251)
T ss_pred             HhhccHHHHHHHHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHH
Confidence            7777777777777777665310 12223445566777777777777777777765  55555544445555666666555


Q ss_pred             HHHHHH
Q 036731          217 IELLRS  222 (259)
Q Consensus       217 ~~~~~~  222 (259)
                      ..-+..
T Consensus       213 ~aq~~~  218 (251)
T COG4700         213 NAQYVA  218 (251)
T ss_pred             HHHHHH
Confidence            444333

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.58  E-value=0.00043  Score=41.03  Aligned_cols=69  Identities=13%  Similarity=0.073  Sum_probs=51.7

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccch-hHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEI-NIVAYGCLIDGLCKIGKLKNARELSQSLTR  155 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  155 (259)
                      ..+++.+...|...|++++|+..|++..+..-.... ..+ ...++..+..++...|++++|++.+++..+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGD-DHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTT-HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456788899999999999999999988754111110 122 367889999999999999999999988654

...

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.56  E-value=0.00099  Score=48.84  Aligned_cols=98  Identities=13%  Similarity=0.173  Sum_probs=80.1

Q ss_pred             cccccccc--cCCHHHHHHHHHHHHhc-----CChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcC------------
Q 036731            5 NREFGVVC--KPNTVTYNTIIDGLCKE-----GFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN------------   65 (259)
Q Consensus         5 ~~~~~~~~--~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~------------   65 (259)
                      ++.|+...  +.|-.+|-+.+..+...     +.++-....++.|.+-|+..|..+|+.|++.+-+..            
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            45565544  56888899888888653     667778888899999999999999999998765432            


Q ss_pred             ----ChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCH
Q 036731           66 ----DGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKM  102 (259)
Q Consensus        66 ----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  102 (259)
                          +-+-++.++++|...|+.||..+-..|++++.+.+..
T Consensus       134 HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             hCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence                2345899999999999999999999999999998764

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.56  E-value=0.014  Score=41.73  Aligned_cols=170  Identities=14%  Similarity=0.104  Sum_probs=96.6

Q ss_pred             HHHHHHHhhcCChhHHHHHHHHHHHcCCC--CchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHH
Q 036731           55 NSLIHGFCYANDGNEAEYLFIEMMDRGLQ--SDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC  132 (259)
Q Consensus        55 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  132 (259)
                      -.....+...|++.+|...|+.+......  -.....-.++.++.+.|+++.|...++++.+.  -|+.    ....+..
T Consensus         9 Y~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~--yP~~----~~~~~A~   82 (203)
T PF13525_consen    9 YQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL--YPNS----PKADYAL   82 (203)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-----TTHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCC----cchhhHH
Confidence            33445667889999999999999876322  12345556788899999999999999998764  2322    1122222


Q ss_pred             HHHHHHhcC-------------ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHH
Q 036731          133 LIDGLCKIG-------------KLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVI  199 (259)
Q Consensus       133 l~~~~~~~~-------------~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~  199 (259)
                      .+.+.+...             ...+|...               +..++.-|-.+....+|...+..+.+.    =...
T Consensus        83 Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~~---------------~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~  143 (203)
T PF13525_consen   83 YMLGLSYYKQIPGILRSDRDQTSTRKAIEE---------------FEELIKRYPNSEYAEEAKKRLAELRNR----LAEH  143 (203)
T ss_dssp             HHHHHHHHHHHHHHH-TT---HHHHHHHHH---------------HHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHH
T ss_pred             HHHHHHHHHhCccchhcccChHHHHHHHHH---------------HHHHHHHCcCchHHHHHHHHHHHHHHH----HHHH
Confidence            222222111             11223333               344444444455555666555555433    1111


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhC--CCccchHHHHHHHHHHHHhcccC
Q 036731          200 FTTLMPSFIRKNETSKVIELLRSMDKR--NVMPYASILSIIVDLLVKNEISL  249 (259)
Q Consensus       200 ~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~  249 (259)
                      --.+...|.+.|.+..|..-++.+++.  +.+........++.+|.+.|..+
T Consensus       144 e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~  195 (203)
T PF13525_consen  144 ELYIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQ  195 (203)
T ss_dssp             HHHHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChH
Confidence            223567788889999998888888765  22223345667778888887765

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.55  E-value=0.015  Score=43.31  Aligned_cols=100  Identities=12%  Similarity=0.023  Sum_probs=74.7

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC---ChhHHHHHHHHHHhcCCCCcHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDE---QMDKAHDLFLDMEVKGVAPNCVIFTT  202 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~p~~~~~~~  202 (259)
                      |...|..|..+|...|+.+.|..-|....+.. .++...+..+..++..+.   ...++..+|+++...+ +-|..+...
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 DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHHH
Confidence            66889999999999999999999888887753 235556666666555432   3557888888888764 345666777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          203 LMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       203 l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      |...+...|++.+|...|+.|.+..
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC
Confidence            7778888899999999999888763

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.46  E-value=0.024  Score=42.19  Aligned_cols=98  Identities=12%  Similarity=0.020  Sum_probs=79.5

Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc---CCHHHHHHHHHHHhhCCCccchHHH
Q 036731          159 MPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRK---NETSKVIELLRSMDKRNVMPYASIL  235 (259)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~  235 (259)
                      +-|...|..|..+|...|+++.|..-|.+..+.. .++...+..+..++...   ....++..+|+++...+ +-+....
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            3488899999999999999999999999988762 45667777777666543   34568999999999875 3467777


Q ss_pred             HHHHHHHHHhcccCCcchhhhcc
Q 036731          236 SIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       236 ~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      ..+...+...|++.+|...|+.|
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~l  253 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQML  253 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHH
Confidence            78888899999999999988765

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.43  E-value=0.0067  Score=39.56  Aligned_cols=101  Identities=10%  Similarity=0.087  Sum_probs=59.7

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      |..++..++.++++.|+.+....+++..-.  +.++...         ..+.         --......|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~Wg--I~~~~~~---------~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWG--IDVNGKK---------KEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcC--CCCCCcc---------ccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            346777788888888888887777765432  2211100         0000         1112245677777777777


Q ss_pred             HHHhcCCHHHHHHHHHHHhh-CCCccchHHHHHHHHHHHHhc
Q 036731          206 SFIRKNETSKVIELLRSMDK-RNVMPYASILSIIVDLLVKNE  246 (259)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g  246 (259)
                      +|+..|++..|.++++...+ .+++.+..+|..|++-....-
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~s  102 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVLS  102 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhc
Confidence            77777777777777776543 355556667777766554443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK15331 chaperone protein SicA; Provisional

Probab=97.36  E-value=0.02  Score=38.85  Aligned_cols=90  Identities=11%  Similarity=-0.052  Sum_probs=68.6

Q ss_pred             HHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHH
Q 036731           59 HGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLC  138 (259)
Q Consensus        59 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  138 (259)
                      .-+...|++++|..+|.-+.-.++. +..-|..|..+|-..+++++|+..|......+..       |++.+-....++.
T Consensus        45 y~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-------dp~p~f~agqC~l  116 (165)
T PRK15331         45 YEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-------DYRPVFFTGQCQL  116 (165)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-------CCCccchHHHHHH
Confidence            3456789999999999888765433 5666777888888889999999988877654432       3466777888888


Q ss_pred             hcCChHHHHHHHHHHHHc
Q 036731          139 KIGKLKNARELSQSLTRA  156 (259)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~  156 (259)
                      ..|+.+.|...|+.....
T Consensus       117 ~l~~~~~A~~~f~~a~~~  134 (165)
T PRK15331        117 LMRKAAKARQCFELVNER  134 (165)
T ss_pred             HhCCHHHHHHHHHHHHhC
Confidence            999999999988888763

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.32  E-value=0.003  Score=36.76  Aligned_cols=53  Identities=8%  Similarity=0.058  Sum_probs=23.9

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          172 LCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      +.+.++++.|..+++.+...+ +.+...+.....++.+.|++++|.+.+++..+
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            344444444444444444431 22333344444444444555555555544443

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.30  E-value=0.0011  Score=39.28  Aligned_cols=26  Identities=19%  Similarity=0.252  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHh
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMK   43 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~   43 (259)
                      +|+.+...|...|++++|+..|++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al   32 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKAL   32 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44445555555555555555554443

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.27  E-value=0.0035  Score=36.47  Aligned_cols=64  Identities=8%  Similarity=-0.091  Sum_probs=53.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHH
Q 036731          134 IDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIF  200 (259)
Q Consensus       134 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  200 (259)
                      -..|.+.+++++|..+++.+...+.. +...+.....++...|++++|...|+...+.  .|+....
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~--~p~~~~~   65 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALEL--SPDDPDA   65 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHH--CCCcHHH
Confidence            46788999999999999999998533 6778888899999999999999999999977  4554443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.20  E-value=0.0053  Score=47.63  Aligned_cols=129  Identities=10%  Similarity=-0.054  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHH----HcCCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHhc----C-CCCcH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLT----RAGLM-PNVVTYNITIHALCNDEQMDKAHDLFLDMEVK----G-VAPNC  197 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~-~~p~~  197 (259)
                      ..|..|...|.-.|+++.|+...+.-.    +.|-+ .-...+..+..++.-.|+++.|.+.|+.-...    | -....
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            455666666667788999887765532    22311 13456777888888899999999988764322    2 12344


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhh----C-CCccchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          198 VIFTTLMPSFIRKNETSKVIELLRSMDK----R-NVMPYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       198 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                      .+..+|...|.-..++++|+.++.+-+.    . +..-....+.++..+|...|..++|+.+..
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae  339 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAE  339 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            5666788888888889999988876332    1 123345678889999998888888876543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=97.13  E-value=0.072  Score=40.50  Aligned_cols=132  Identities=10%  Similarity=0.162  Sum_probs=71.3

Q ss_pred             hHHHHHHHHHHhhCCCCCchHhHHHHHHHHhh--cCC----hhHHHHHHHHHHHcCC---CCchhhHHHHHHHHHHcCC-
Q 036731           32 VDKAKELFLQMKDENINPNVVTYNSLIHGFCY--AND----GNEAEYLFIEMMDRGL---QSDVVTFNVIMDELCKNRK-  101 (259)
Q Consensus        32 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~--~~~----~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~-  101 (259)
                      +++...+++.|.+.|+.-+..+|-+.......  ..+    ..++..+|+.|++...   .++...+..++..  ...+ 
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            44566677777777777666555543322222  222    3457777777776532   1233344444333  2222 


Q ss_pred             ---HHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC--hHHHHHHHHHHHHcCCCCChhhHHHHH
Q 036731          102 ---MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK--LKNARELSQSLTRAGLMPNVVTYNITI  169 (259)
Q Consensus       102 ---~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~li  169 (259)
                         .+.++.+|+.+.+.|.....    +......++..+....+  ...+..+++.+.+.|+++....|..+.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn----~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGN----DLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCc----HHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence               24566677777776766654    44444444444433322  336667777777777776666555443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.11  E-value=0.045  Score=37.93  Aligned_cols=133  Identities=12%  Similarity=0.091  Sum_probs=73.2

Q ss_pred             CCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhH
Q 036731           48 NPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINI  127 (259)
Q Consensus        48 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  127 (259)
                      .|+...-..|..+....|+..+|...|++...--+--|....-.+.++....+++..|...++.+-+..  |..   .++
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~--pa~---r~p  160 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYN--PAF---RSP  160 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC--Ccc---CCC
Confidence            455555555666666667777776666666543344455555566666666666666666666665543  111   122


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLD  187 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  187 (259)
                      .+...+.+.+...|.+.+|+.-|+.....  -|+...-......+.+.|+.+++..-+..
T Consensus       161 d~~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         161 DGHLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             CchHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            34455566666666666666666666654  23333322333334455555544443333

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=97.09  E-value=0.039  Score=36.84  Aligned_cols=85  Identities=12%  Similarity=0.070  Sum_probs=42.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHc
Q 036731           20 NTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKN   99 (259)
Q Consensus        20 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   99 (259)
                      ..++..+.+.+.......+++.+...+ ..+...++.++..|++.+ ..+....+..      .++......+++.|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            345555555566666666666665554 245556666666665442 2222233221      11233334455555555


Q ss_pred             CCHHHHHHHHHHH
Q 036731          100 RKMDEATRLLDLM  112 (259)
Q Consensus       100 ~~~~~a~~~~~~~  112 (259)
                      +.++++.-++.++
T Consensus        83 ~l~~~~~~l~~k~   95 (140)
T smart00299       83 KLYEEAVELYKKD   95 (140)
T ss_pred             CcHHHHHHHHHhh
Confidence            5555555555443

>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=97.07  E-value=0.031  Score=45.00  Aligned_cols=159  Identities=12%  Similarity=0.047  Sum_probs=105.4

Q ss_pred             HHHHHhcCChHHHHHHHH--HHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcC
Q 036731           23 IDGLCKEGFVDKAKELFL--QMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNR  100 (259)
Q Consensus        23 l~~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  100 (259)
                      .+...-.++++.+.++.+  ++.. .++  ....+.++..+.+.|-.+.|+++..+-.            .-.....+.|
T Consensus       268 fk~av~~~d~~~v~~~i~~~~ll~-~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg  332 (443)
T PF04053_consen  268 FKTAVLRGDFEEVLRMIAASNLLP-NIP--KDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLG  332 (443)
T ss_dssp             HHHHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT
T ss_pred             HHHHHHcCChhhhhhhhhhhhhcc-cCC--hhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcC
Confidence            455566889999877775  2221 222  4557889999999999999998864322            2345567789


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhH
Q 036731          101 KMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDK  180 (259)
Q Consensus       101 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  180 (259)
                      +++.|.++.++..            +...|..|.....+.|+++.|+..|++..+         |..|+-.|...|+.+.
T Consensus       333 ~L~~A~~~a~~~~------------~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~  391 (443)
T PF04053_consen  333 NLDIALEIAKELD------------DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREK  391 (443)
T ss_dssp             -HHHHHHHCCCCS------------THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHH
T ss_pred             CHHHHHHHHHhcC------------cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHH
Confidence            9999987754321            347999999999999999999999987543         5667777888899888


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 036731          181 AHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSM  223 (259)
Q Consensus       181 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  223 (259)
                      -.++.+.....|      -++..+.++.-.|+.++..+++.+.
T Consensus       392 L~kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  392 LSKLAKIAEERG------DINIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             HHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             HHHHHHHHHHcc------CHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            877777777664      2555556666778888888777543

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.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.05  E-value=0.1  Score=41.36  Aligned_cols=148  Identities=15%  Similarity=0.232  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCC-CCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhH-HHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDEN-INPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTF-NVIM   93 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~   93 (259)
                      ..+|...|....+..-++.|..+|-++.+.| +.+++..++++|..++ .|+...|..+|+-=...  -||...| +..+
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            4566677777777777888999999988887 5677888888887665 47888888888754443  2344433 5567


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC  173 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (259)
                      ..+...++-+.|..+|+.....--. +.    -...|..+|..-...|+...+..+=+.|...  .|...+...+.+.|.
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~-~q----~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEK-TQ----LKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHH-hh----hhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            7778888888888888843321000 00    1368888888888888888888877777664  445445444544444

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.01  E-value=0.045  Score=43.45  Aligned_cols=65  Identities=18%  Similarity=0.186  Sum_probs=57.3

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCch----HhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNV----VTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      .+...|+.+..+|.+.|++++|+..|++..+.  .|+.    .+|..+..+|...|+.++|+..+++..+.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            36788999999999999999999999998876  4553    35899999999999999999999999875

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.00  E-value=0.035  Score=46.25  Aligned_cols=195  Identities=14%  Similarity=0.144  Sum_probs=101.7

Q ss_pred             CCCcccccccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhC-CCCCc--------hHhHHHHHHHHhhcCChhHHHH
Q 036731            2 ANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDE-NINPN--------VVTYNSLIHGFCYANDGNEAEY   72 (259)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~--------~~~~~~li~~~~~~~~~~~a~~   72 (259)
                      ++|....+.  .|-+..|..+.....+.-.++.|+..|-+...- |++.-        ...-..=+.  +--|++++|.+
T Consensus       680 edA~qfiEd--nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~--~~~g~feeaek  755 (1189)
T KOG2041|consen  680 EDAIQFIED--NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEIS--AFYGEFEEAEK  755 (1189)
T ss_pred             HHHHHHHhc--CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHh--hhhcchhHhhh
Confidence            344444444  466777888888777777788888777666432 33211        111111122  23478888888


Q ss_pred             HHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHH
Q 036731           73 LFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQS  152 (259)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  152 (259)
                      +|-+|-++.         ..+..+.+.|++-...++++.   .|...+.  ..-...|+.+...+.....|++|.+.|..
T Consensus       756 ~yld~drrD---------LAielr~klgDwfrV~qL~r~---g~~d~dD--~~~e~A~r~ig~~fa~~~~We~A~~yY~~  821 (1189)
T KOG2041|consen  756 LYLDADRRD---------LAIELRKKLGDWFRVYQLIRN---GGSDDDD--EGKEDAFRNIGETFAEMMEWEEAAKYYSY  821 (1189)
T ss_pred             hhhccchhh---------hhHHHHHhhhhHHHHHHHHHc---cCCCcch--HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            887776552         234455556666554444431   1111110  11224555555555555555555555443


Q ss_pred             HHH---------------------cCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC
Q 036731          153 LTR---------------------AGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKN  211 (259)
Q Consensus       153 ~~~---------------------~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  211 (259)
                      -..                     ..++.+....-.+..++...|.-++|.+.+-+--    .|     ...+..|...+
T Consensus       822 ~~~~e~~~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~p-----kaAv~tCv~Ln  892 (1189)
T KOG2041|consen  822 CGDTENQIECLYRLELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRS----LP-----KAAVHTCVELN  892 (1189)
T ss_pred             ccchHhHHHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhcc----Cc-----HHHHHHHHHHH
Confidence            211                     1123344555556666666666666655543221    11     12345666677


Q ss_pred             CHHHHHHHHHHH
Q 036731          212 ETSKVIELLRSM  223 (259)
Q Consensus       212 ~~~~a~~~~~~~  223 (259)
                      +|.+|.++-++.
T Consensus       893 QW~~avelaq~~  904 (1189)
T KOG2041|consen  893 QWGEAVELAQRF  904 (1189)
T ss_pred             HHHHHHHHHHhc
Confidence            777777766554

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.96  E-value=0.057  Score=44.04  Aligned_cols=162  Identities=10%  Similarity=0.054  Sum_probs=101.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 036731           93 MDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK----IGKLKNARELSQSLTRAGLMPNVVTYNIT  168 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  168 (259)
                      +....=.|+-+.+++.+.+..+.+--..+......-.|..++..++.    ..+.+.|.++++.+.+.  -|+...|...
T Consensus       195 l~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~  272 (468)
T PF10300_consen  195 LSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFF  272 (468)
T ss_pred             HhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHH
Confidence            33344568888898888876653222111011112344444444443    44678899999999886  5777766554


Q ss_pred             H-HHHHhcCChhHHHHHHHHHHhcC--C-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHH-HHH
Q 036731          169 I-HALCNDEQMDKAHDLFLDMEVKG--V-APNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVD-LLV  243 (259)
Q Consensus       169 i-~~~~~~~~~~~a~~~~~~~~~~~--~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~~~  243 (259)
                      - +.+...|++++|.+.|++.....  . +.....+--+...+.-..+|++|.+.|.++.+.+ .-+..+|.-+.- ++.
T Consensus       273 ~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~  351 (468)
T PF10300_consen  273 EGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAACLL  351 (468)
T ss_pred             HHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHH
Confidence            3 55667899999999999765421  1 1123345556667788999999999999999764 223444443332 245


Q ss_pred             Hhccc-------CCcchhhhc
Q 036731          244 KNEIS-------LNSIPQFNR  257 (259)
Q Consensus       244 ~~g~~-------~~a~~~~~~  257 (259)
                      ..|+.       ++|.++|.+
T Consensus       352 ~l~~~~~~~~~~~~a~~l~~~  372 (468)
T PF10300_consen  352 MLGREEEAKEHKKEAEELFRK  372 (468)
T ss_pred             hhccchhhhhhHHHHHHHHHH
Confidence            66777       667776654

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.94  E-value=0.12  Score=39.83  Aligned_cols=111  Identities=10%  Similarity=0.112  Sum_probs=82.6

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHH
Q 036731           87 VTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYN  166 (259)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  166 (259)
                      .+.+..+.-|...|+...|.++-.+..    .|      +...|...+.+++..++|++-..+...  +    -++..|.
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~------dkrfw~lki~aLa~~~~w~eL~~fa~s--k----KsPIGye  241 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VP------DKRFWWLKIKALAENKDWDELEKFAKS--K----KSPIGYE  241 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----Cc------HHHHHHHHHHHHHhcCCHHHHHHHHhC--C----CCCCChH
Confidence            455666777888899888888866552    23      568999999999999999988776543  1    1457899


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 036731          167 ITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSM  223 (259)
Q Consensus       167 ~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  223 (259)
                      .++.+|...|+..+|..+...+     +     +..-+..|.+.|++.+|.+...+.
T Consensus       242 pFv~~~~~~~~~~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  242 PFVEACLKYGNKKEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHHHHHHHCCCHHHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            9999999999999998888662     1     244566778888888887765433

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

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.92  E-value=0.011  Score=43.56  Aligned_cols=98  Identities=18%  Similarity=0.179  Sum_probs=73.2

Q ss_pred             hHHHHHHHHHHHHh-----cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC----------------ChhHHHHH
Q 036731          126 NIVAYGCLIDGLCK-----IGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDE----------------QMDKAHDL  184 (259)
Q Consensus       126 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~----------------~~~~a~~~  184 (259)
                      |..+|...+..+..     .+.++-....++.|.+.|+.-|..+|..|++.+-+..                +-+=+.++
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~v  145 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKV  145 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHH
Confidence            44667666666653     3567777778888999999999999999988865432                22347889


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcCCHH-HHHHHHHHH
Q 036731          185 FLDMEVKGVAPNCVIFTTLMPSFIRKNETS-KVIELLRSM  223 (259)
Q Consensus       185 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~-~a~~~~~~~  223 (259)
                      +++|...|+.||..+-..|+.++.+.+..- +..++.--|
T Consensus       146 LeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  146 LEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence            999999999999999999999998887653 334443334

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.88  E-value=0.038  Score=40.66  Aligned_cols=98  Identities=20%  Similarity=0.198  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhC--CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCC-C-chhhHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDE--NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ-S-DVVTFNVI   92 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l   92 (259)
                      ..|+.-+..+ +.|++..|...|....+.  +-.-....+-.|..++...|++++|..+|..+.+.-.+ | -+..+-.|
T Consensus       143 ~~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         143 KLYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            3677766655 677899999999999876  22234566788999999999999999999999875322 1 24667778


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhC
Q 036731           93 MDELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~  115 (259)
                      ..+..+.|+.++|..+|+++.+.
T Consensus       222 g~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHH
Confidence            88899999999999999999875

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.86  E-value=0.064  Score=35.56  Aligned_cols=86  Identities=10%  Similarity=-0.001  Sum_probs=63.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhC--CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDE--NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVI   92 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   92 (259)
                      +...+-.-.....+.|++++|.+.|+.+..+  .-+-....--.++.+|.+.++++.|...+++.++........-|...
T Consensus         9 ~~~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y   88 (142)
T PF13512_consen    9 SPQELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYY   88 (142)
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            3444444556667899999999999999876  11224456667889999999999999999999988655445566666


Q ss_pred             HHHHHHcC
Q 036731           93 MDELCKNR  100 (259)
Q Consensus        93 ~~~~~~~~  100 (259)
                      +.+++.-.
T Consensus        89 ~~gL~~~~   96 (142)
T PF13512_consen   89 MRGLSYYE   96 (142)
T ss_pred             HHHHHHHH
Confidence            66655443

>PRK15331 chaperone protein SicA; Provisional

Probab=96.86  E-value=0.073  Score=36.20  Aligned_cols=96  Identities=13%  Similarity=-0.025  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFI  208 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  208 (259)
                      ..-...--+...|++++|..+|+-+.-.+.- +..-|..|..++-..+++++|...|...-..+. -|+..+-....++.
T Consensus        39 ~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l  116 (165)
T PRK15331         39 GLYAHAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQL  116 (165)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHH
Confidence            3334455567889999999999999876543 555667777788889999999999987665532 24444556688899


Q ss_pred             hcCCHHHHHHHHHHHhhC
Q 036731          209 RKNETSKVIELLRSMDKR  226 (259)
Q Consensus       209 ~~~~~~~a~~~~~~~~~~  226 (259)
                      ..|+.+.|...|....+.
T Consensus       117 ~l~~~~~A~~~f~~a~~~  134 (165)
T PRK15331        117 LMRKAAKARQCFELVNER  134 (165)
T ss_pred             HhCCHHHHHHHHHHHHhC
Confidence            999999999999998874

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.78  E-value=0.057  Score=39.74  Aligned_cols=97  Identities=16%  Similarity=0.087  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--CChhhHHHHHHHHHhcCChhHHHHHHHHHHhc-CC-CCcHHHHHHHH
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLM--PNVVTYNITIHALCNDEQMDKAHDLFLDMEVK-GV-APNCVIFTTLM  204 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~-~p~~~~~~~l~  204 (259)
                      .|+.-+..+. .|++..|...|....+....  -....+-+|..++...|+++.|..+|..+.+. +- +--+..+--|.
T Consensus       144 ~Y~~A~~~~k-sgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDLYK-SGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHHH-cCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            4444443332 33455555555555543211  12223444555555555555555555555443 00 11123444444


Q ss_pred             HHHHhcCCHHHHHHHHHHHhhC
Q 036731          205 PSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       205 ~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      .+..+.|+.++|..+|+++.++
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            5555555555555555555544

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.76  E-value=0.1  Score=40.80  Aligned_cols=151  Identities=13%  Similarity=0.013  Sum_probs=84.9

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHH--HHHHhcCChHHHHHHHHHHHHcCCCCChhhHH-----
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLI--DGLCKIGKLKNARELSQSLTRAGLMPNVVTYN-----  166 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----  166 (259)
                      .++.-.|+.++|.++--.+.+.+..         ..+...+  .++.-.++.+.+...|++....+  |+...-.     
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld~~---------n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~  245 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLDAT---------NAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMM  245 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhcccc---------hhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhh
Confidence            3455567777777766665554322         2333333  33445667777777777766543  3322211     


Q ss_pred             --------HHHHHHHhcCChhHHHHHHHHHHhc---CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHH
Q 036731          167 --------ITIHALCNDEQMDKAHDLFLDMEVK---GVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASIL  235 (259)
Q Consensus       167 --------~li~~~~~~~~~~~a~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  235 (259)
                              .-..-..+.|++..|.+.|.+.+..   .+.|+...|........+.|+..+|..-.++..+.+. .-...+
T Consensus       246 ~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~-syikal  324 (486)
T KOG0550|consen  246 PKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDS-SYIKAL  324 (486)
T ss_pred             HHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCH-HHHHHH
Confidence                    1122234667777888777776644   3455666666666677777777777777776665421 122233


Q ss_pred             HHHHHHHHHhcccCCcchhhh
Q 036731          236 SIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       236 ~~l~~~~~~~g~~~~a~~~~~  256 (259)
                      ..-..++...++|++|.+-|+
T Consensus       325 l~ra~c~l~le~~e~AV~d~~  345 (486)
T KOG0550|consen  325 LRRANCHLALEKWEEAVEDYE  345 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333445555666666666554

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.69  E-value=0.2  Score=39.03  Aligned_cols=97  Identities=14%  Similarity=0.141  Sum_probs=65.4

Q ss_pred             CCHHHHHHHHHH--HHhcCChHHHHHHHHHHhhCCCCCchH--hHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhH
Q 036731           14 PNTVTYNTIIDG--LCKEGFVDKAKELFLQMKDENINPNVV--TYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTF   89 (259)
Q Consensus        14 ~~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   89 (259)
                      .|....-.++.+  -.-.|+++.|.+-|+.|...   |...  -...|.-..-+.|+.+.|.++-++....-. .-...+
T Consensus       116 sDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap-~l~WA~  191 (531)
T COG3898         116 SDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAP-QLPWAA  191 (531)
T ss_pred             ccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhcc-CCchHH
Confidence            344444455543  34579999999999999753   2221  122333344567888888888877766532 245677


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Q 036731           90 NVIMDELCKNRKMDEATRLLDLMIQ  114 (259)
Q Consensus        90 ~~l~~~~~~~~~~~~a~~~~~~~~~  114 (259)
                      ...+...+..|+++.|+++++.-+.
T Consensus       192 ~AtLe~r~~~gdWd~AlkLvd~~~~  216 (531)
T COG3898         192 RATLEARCAAGDWDGALKLVDAQRA  216 (531)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHHHH
Confidence            8888999999999999999987654

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.65  E-value=0.097  Score=34.72  Aligned_cols=29  Identities=21%  Similarity=0.060  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      .+-..++.+|.+.+++++|...++++.+.
T Consensus        48 qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   48 QAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            34444444444444555544444444443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.62  E-value=0.17  Score=37.10  Aligned_cols=166  Identities=14%  Similarity=0.078  Sum_probs=89.3

Q ss_pred             HhHHHHHHHHhhcCChhHHHHHHHHHHHcCC--CCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCCCccchhHH
Q 036731           52 VTYNSLIHGFCYANDGNEAEYLFIEMMDRGL--QSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGG-VRPDAFCEINIV  128 (259)
Q Consensus        52 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~  128 (259)
                      ..|+..+. -.+.|++++|.+.|+.+....+  +-...+.-.++.++.+.++++.|+..+++....- ..|+       .
T Consensus        36 ~LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n-------~  107 (254)
T COG4105          36 ELYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-------A  107 (254)
T ss_pred             HHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-------h
Confidence            34444332 3456777777777777664321  1123344445556666777777777776665432 2222       3


Q ss_pred             HHHHHHHHHHhc-------CChHH---HHHHHHHHHHc----CCCCChhhH------------HHHHHHHHhcCChhHHH
Q 036731          129 AYGCLIDGLCKI-------GKLKN---ARELSQSLTRA----GLMPNVVTY------------NITIHALCNDEQMDKAH  182 (259)
Q Consensus       129 ~~~~l~~~~~~~-------~~~~~---a~~~~~~~~~~----~~~~~~~~~------------~~li~~~~~~~~~~~a~  182 (259)
                      .|...|.+.+..       .|...   |..-|+++...    ...||...-            ..+.+-|.+.|.+..|.
T Consensus       108 dY~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~  187 (254)
T COG4105         108 DYAYYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAI  187 (254)
T ss_pred             hHHHHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHH
Confidence            333334333321       22222   33333333332    111221111            23445677888888888


Q ss_pred             HHHHHHHhcCCCCc---HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          183 DLFLDMEVKGVAPN---CVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       183 ~~~~~~~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      .=++.|.+. .+-+   ...+-.+..+|...|-.++|.+.-+-+...
T Consensus       188 nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         188 NRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            888888877 2222   244566778888889888888876665544

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.61  E-value=0.24  Score=38.81  Aligned_cols=169  Identities=12%  Similarity=0.004  Sum_probs=105.8

Q ss_pred             hHhHHHHHHHHhhcCChhHHHHHHHHHHHcC---CCCchhhHHHHHHHHHH---cCCHHHHHHHHHHHHhCCCCCCCccc
Q 036731           51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRG---LQSDVVTFNVIMDELCK---NRKMDEATRLLDLMIQGGVRPDAFCE  124 (259)
Q Consensus        51 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~  124 (259)
                      ..+...++-+|....+++...++.+.+....   +.-....-....-++.+   .|+.++|++++..+......+     
T Consensus       141 ~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~-----  215 (374)
T PF13281_consen  141 PDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENP-----  215 (374)
T ss_pred             hhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCC-----
Confidence            3444556667999999999999999998652   11122222344556667   899999999999965544444     


Q ss_pred             hhHHHHHHHHHHHHh---------cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh-h---HHHHHH---HHH
Q 036731          125 INIVAYGCLIDGLCK---------IGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQM-D---KAHDLF---LDM  188 (259)
Q Consensus       125 ~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~-~---~a~~~~---~~~  188 (259)
                       ++.+|..+.+.|-.         ....++|...|.+.-+.  .|+..+=-.+...+...|.. +   +..++-   ..+
T Consensus       216 -~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~l  292 (374)
T PF13281_consen  216 -DPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSL  292 (374)
T ss_pred             -ChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence             44788888888743         12367788888776554  34544322233333333331 1   222222   221


Q ss_pred             -HhcCC---CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          189 -EVKGV---APNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       189 -~~~~~---~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                       .+.|.   ..+--.+..++.++.-.|+.++|.+..++|.+..
T Consensus       293 lg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  293 LGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             HHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence             12332   2344556678889999999999999999998764

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.60  E-value=0.046  Score=43.43  Aligned_cols=99  Identities=17%  Similarity=0.078  Sum_probs=71.7

Q ss_pred             chhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh----hhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHH
Q 036731          124 EINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNV----VTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVI  199 (259)
Q Consensus       124 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~  199 (259)
                      +.+...++.+..+|...|++++|...|++..+.+  |+.    .+|..+..+|...|+.++|...+++..+.+ .+   .
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n~---~  145 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-NL---K  145 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-ch---h
Confidence            3467899999999999999999999999988864  553    358999999999999999999999998762 22   2


Q ss_pred             HHHHHH--HHHhcCCHHHHHHHHHHHhhCCC
Q 036731          200 FTTLMP--SFIRKNETSKVIELLRSMDKRNV  228 (259)
Q Consensus       200 ~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~  228 (259)
                      |..+..  .+....+..+..++++.+.+-|.
T Consensus       146 f~~i~~DpdL~plR~~pef~eLlee~rk~G~  176 (453)
T PLN03098        146 FSTILNDPDLAPFRASPEFKELQEEARKGGE  176 (453)
T ss_pred             HHHHHhCcchhhhcccHHHHHHHHHHHHhCC
Confidence            321111  11122333466667777766554

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.57  E-value=0.082  Score=42.66  Aligned_cols=134  Identities=15%  Similarity=0.122  Sum_probs=99.3

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ..-.+.++..+.+.|..+.|+++..+-            ..-.....+.|+++.|.++.++      .++...|..|...
T Consensus       295 ~~~~~~i~~fL~~~G~~e~AL~~~~D~------------~~rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~  356 (443)
T PF04053_consen  295 KDQGQSIARFLEKKGYPELALQFVTDP------------DHRFELALQLGNLDIALEIAKE------LDDPEKWKQLGDE  356 (443)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHSS-H------------HHHHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHhhcCCh------------HHHhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHH
Confidence            445888888999999999998876432            1234456688999999887532      2367799999999


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND  175 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  175 (259)
                      ..+.|+++-|++.|.+.               .-+..|+-.|.-.|+.+.-.++.+.....|      -++....++...
T Consensus       357 AL~~g~~~lAe~c~~k~---------------~d~~~L~lLy~~~g~~~~L~kl~~~a~~~~------~~n~af~~~~~l  415 (443)
T PF04053_consen  357 ALRQGNIELAEECYQKA---------------KDFSGLLLLYSSTGDREKLSKLAKIAEERG------DINIAFQAALLL  415 (443)
T ss_dssp             HHHTTBHHHHHHHHHHC---------------T-HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHhh---------------cCccccHHHHHHhCCHHHHHHHHHHHHHcc------CHHHHHHHHHHc
Confidence            99999999999999865               457888889999999988888888877765      256666677777


Q ss_pred             CChhHHHHHHHHH
Q 036731          176 EQMDKAHDLFLDM  188 (259)
Q Consensus       176 ~~~~~a~~~~~~~  188 (259)
                      |+.+++.+++.+-
T Consensus       416 gd~~~cv~lL~~~  428 (443)
T PF04053_consen  416 GDVEECVDLLIET  428 (443)
T ss_dssp             T-HHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHc
Confidence            8988888877553

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.

>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=96.56  E-value=0.098  Score=36.51  Aligned_cols=97  Identities=14%  Similarity=0.145  Sum_probs=67.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc--hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHH---H
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN--VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFN---V   91 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~   91 (259)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+.  ...+-.+|+.....+++..+.....+....-..+......   .
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            5678889999999999999999999987744443  4566778888899999999998888776432222212111   1


Q ss_pred             HHH--HHHHcCCHHHHHHHHHHHH
Q 036731           92 IMD--ELCKNRKMDEATRLLDLMI  113 (259)
Q Consensus        92 l~~--~~~~~~~~~~a~~~~~~~~  113 (259)
                      ...  .+...+++..|-+.|-...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence            122  2345778888888876554

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.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.49  E-value=0.29  Score=38.34  Aligned_cols=168  Identities=12%  Similarity=0.040  Sum_probs=106.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCC---CCCchHhHHHHHHHHhh---cCChhHHHHHHHHHHHcCCCCchhhH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDEN---INPNVVTYNSLIHGFCY---ANDGNEAEYLFIEMMDRGLQSDVVTF   89 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~   89 (259)
                      ..+...++-+|....+++...++++.+....   +.-....-....-++.+   .|+.++|++++..+....-.+++.++
T Consensus       141 ~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~  220 (374)
T PF13281_consen  141 PDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTL  220 (374)
T ss_pred             hhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHH
Confidence            3344456667999999999999999998651   11122222234445556   89999999999997766677888999


Q ss_pred             HHHHHHHHH---------cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC----hHHHHHHH---HH-
Q 036731           90 NVIMDELCK---------NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK----LKNARELS---QS-  152 (259)
Q Consensus        90 ~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----~~~a~~~~---~~-  152 (259)
                      ..+.+.|-.         ....++|+..|.+.-+..  |+.+      .--.++..+...|.    -.+..++-   .. 
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y------~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~l  292 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIE--PDYY------SGINAATLLMLAGHDFETSEELRKIGVKLSSL  292 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCC--cccc------chHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            988887643         224677888887765543  4332      11122222223332    11223332   11 


Q ss_pred             HHHcCCC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          153 LTRAGLM---PNVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       153 ~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      +.+.|..   .+--.+..++.++.-.|+.++|.+..++|...
T Consensus       293 lg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  293 LGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             HHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            2233322   23345577889999999999999999999977

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=96.45  E-value=0.26  Score=37.30  Aligned_cols=222  Identities=14%  Similarity=0.109  Sum_probs=127.3

Q ss_pred             HHhcCChHHHHHHHHHHhhCC--CCCch------HhHHHHHHHHhhcC-ChhHHHHHHHHHHHc--------CCCCc---
Q 036731           26 LCKEGFVDKAKELFLQMKDEN--INPNV------VTYNSLIHGFCYAN-DGNEAEYLFIEMMDR--------GLQSD---   85 (259)
Q Consensus        26 ~~~~~~~~~a~~~~~~~~~~~--~~~~~------~~~~~li~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~---   85 (259)
                      ..+.|+++.|..++.+....-  ..|+.      ..|+.-. .....+ +++.|...+++..+.        ...|+   
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~-~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~e   81 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGK-SLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSE   81 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHH-HHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHH
Confidence            457899999999999887542  23332      1223222 334455 888888877766543        12222   


Q ss_pred             --hhhHHHHHHHHHHcCCHH---HHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 036731           86 --VVTFNVIMDELCKNRKMD---EATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP  160 (259)
Q Consensus        86 --~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (259)
                        ..++..++.+|...+..+   +|.++++.+......       .+.++..-+..+.+.++.+.+.+++.+|...- ..
T Consensus        82 lr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-------~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~  153 (278)
T PF08631_consen   82 LRLSILRLLANAYLEWDTYESVEKALNALRLLESEYGN-------KPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DH  153 (278)
T ss_pred             HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-------CcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-cc
Confidence              245666778888777654   456666666543222       13677777888888999999999999998862 22


Q ss_pred             ChhhHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCcHH-HHHH-HHH---HHHhcCC------HHHHHHHHHHHhh-C
Q 036731          161 NVVTYNITIHALCN--DEQMDKAHDLFLDMEVKGVAPNCV-IFTT-LMP---SFIRKNE------TSKVIELLRSMDK-R  226 (259)
Q Consensus       161 ~~~~~~~li~~~~~--~~~~~~a~~~~~~~~~~~~~p~~~-~~~~-l~~---~~~~~~~------~~~a~~~~~~~~~-~  226 (259)
                      ....+..++..+..  ......+...+..+....+.|... .... ++.   ...+.++      .+.+.+++..+.+ .
T Consensus       154 ~e~~~~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~  233 (278)
T PF08631_consen  154 SESNFDSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSL  233 (278)
T ss_pred             ccchHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHh
Confidence            34456665555522  233456667776666555555554 1111 111   1112211      4445555554332 2


Q ss_pred             CCccchHHHHHHH-------HHHHHhcccCCcchhhh
Q 036731          227 NVMPYASILSIIV-------DLLVKNEISLNSIPQFN  256 (259)
Q Consensus       227 ~~~~~~~~~~~l~-------~~~~~~g~~~~a~~~~~  256 (259)
                      +.+.+..+..++.       ..+.+.+++++|.+.|+
T Consensus       234 ~~~ls~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~  270 (278)
T PF08631_consen  234 GKQLSAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYE  270 (278)
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHH
Confidence            2233444433333       33566788888888775

It is also involved in sporulation [].

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.42  E-value=0.29  Score=38.24  Aligned_cols=129  Identities=17%  Similarity=0.055  Sum_probs=87.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCC-----CCCCC---ccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGG-----VRPDA---FCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTY  165 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  165 (259)
                      +.|.+.|++..|..-|++....=     ..+..   ....-..+++.+..+|.+.+++..|+..-......+ ++|....
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            45667777777777776644210     00000   011233678889999999999999999999988875 3477777


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHH-HHHHHHHhcCCH-HHHHHHHHHHhh
Q 036731          166 NITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFT-TLMPSFIRKNET-SKVIELLRSMDK  225 (259)
Q Consensus       166 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~-~~a~~~~~~~~~  225 (259)
                      -.-..++...|+++.|...|+++.+.  .|+-.... .++..-.+.... +...++|..|..
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 YRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            77788999999999999999999986  56554444 444444444333 344677777754

>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=96.40  E-value=0.14  Score=35.73  Aligned_cols=65  Identities=14%  Similarity=0.152  Sum_probs=41.2

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 036731           87 VTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTR  155 (259)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  155 (259)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+..    -...+-.+|+.....+++..+...+.+...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~----~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGH----KIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHH----HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34556666777777777777777776665444432    445666666667777777776666665543

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.38  E-value=0.3  Score=37.24  Aligned_cols=136  Identities=13%  Similarity=0.116  Sum_probs=87.6

Q ss_pred             hhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH--cC----CHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhc
Q 036731           67 GNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK--NR----KMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKI  140 (259)
Q Consensus        67 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  140 (259)
                      +++.+.+++.|.+.|+.-+..++-+..-....  ..    ...++..+|+.|++.....+.   ++-.++..++..  ..
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs---~~D~~~a~lLA~--~~  152 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTS---PEDYPFAALLAM--TS  152 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccC---ccchhHHHHHhc--cc
Confidence            44577888999999999888777664444333  22    356789999999987554432   133455555444  33


Q ss_pred             CC----hHHHHHHHHHHHHcCCCCCh--hhHHHHHHHHHhcCC--hhHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          141 GK----LKNARELSQSLTRAGLMPNV--VTYNITIHALCNDEQ--MDKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       141 ~~----~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~~~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      .+    .+.++.+|+.+.+.|+..+-  .....++..+.....  ..++..+++.+.+.|+++....|..+.-..
T Consensus       153 ~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLa  227 (297)
T PF13170_consen  153 EDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLA  227 (297)
T ss_pred             ccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHH
Confidence            33    35678888888888876433  233334433333222  447889999999999998887776654433

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.34  E-value=0.087  Score=39.37  Aligned_cols=77  Identities=10%  Similarity=0.123  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHH-----cCCCCchhhHHHH
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMD-----RGLQSDVVTFNVI   92 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l   92 (259)
                      ++..++..+...|+++.+...++++.... +-+...|..+|.+|.+.|+...|+..|+.+.+     .|+.|...+....
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            34445555666666666666666666552 44666666666666666666666666666543     4566655555444


Q ss_pred             HHH
Q 036731           93 MDE   95 (259)
Q Consensus        93 ~~~   95 (259)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.33  E-value=0.47  Score=38.90  Aligned_cols=162  Identities=17%  Similarity=0.102  Sum_probs=98.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhC-CCCCc-----hHhHHHHHHHHhh----cCChhHHHHHHHHHHHcCCCCchhhHHH
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDE-NINPN-----VVTYNSLIHGFCY----ANDGNEAEYLFIEMMDRGLQSDVVTFNV   91 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~-----~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~   91 (259)
                      ++....=.||-+.+++.+.+..+. ++.-.     .-.|+..+..++.    ..+.+.|.++++.+.+.  -|+...|..
T Consensus       194 ll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~  271 (468)
T PF10300_consen  194 LLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLF  271 (468)
T ss_pred             HHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHH
Confidence            444445568888888888776554 22211     1223333333332    45667788888888876  456555543


Q ss_pred             -HHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 036731           92 -IMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIH  170 (259)
Q Consensus        92 -l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  170 (259)
                       -.+.+...|++++|++.|++........   .+.....+.-+.-++.-..+|++|...|..+.+.. .-+..+|.-+..
T Consensus       272 ~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~---~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a  347 (468)
T PF10300_consen  272 FEGRLERLKGNLEEAIESFERAIESQSEW---KQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhccchhhH---HhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHH
Confidence             3456677888999988888655321111   12244566667777888888999998888888753 223444444433


Q ss_pred             H-HHhcCCh-------hHHHHHHHHHH
Q 036731          171 A-LCNDEQM-------DKAHDLFLDME  189 (259)
Q Consensus       171 ~-~~~~~~~-------~~a~~~~~~~~  189 (259)
                      + +...++.       ++|..+|++..
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            3 3345666       77777777654

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.28  E-value=0.21  Score=39.03  Aligned_cols=124  Identities=13%  Similarity=0.063  Sum_probs=86.2

Q ss_pred             HHHhhcCChhHHHHHHHHHHHc-----CCCC---------chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccc
Q 036731           59 HGFCYANDGNEAEYLFIEMMDR-----GLQS---------DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCE  124 (259)
Q Consensus        59 ~~~~~~~~~~~a~~~~~~~~~~-----~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  124 (259)
                      +.+.+.|++..|..-|++....     +.++         -..++..+.-+|.+.+++..|++...+....+.  +    
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~--~----  289 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP--N----  289 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC--C----
Confidence            4667788888888887775432     1111         224577788899999999999999999887643  2    


Q ss_pred             hhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH-HHHHHHHHhcCCh-hHHHHHHHHHHhc
Q 036731          125 INIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTY-NITIHALCNDEQM-DKAHDLFLDMEVK  191 (259)
Q Consensus       125 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~~~~~~~~-~~a~~~~~~~~~~  191 (259)
                       |+...-.-..++...|+++.|+..|+++.+.  .|+.... +.++..-.+.... +...++|..|...
T Consensus       290 -N~KALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  290 -NVKALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             -chhHHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence             5677888899999999999999999999986  4554444 4444443343333 3345677777543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.15  E-value=0.36  Score=36.98  Aligned_cols=149  Identities=13%  Similarity=0.087  Sum_probs=69.2

Q ss_pred             CChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCch----hhHHHHHHHHHHcCCHHHH
Q 036731           30 GFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDV----VTFNVIMDELCKNRKMDEA  105 (259)
Q Consensus        30 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a  105 (259)
                      |+..+|-..++++.+. .|.|...+..-=.+|...|+.+.-...+++.... ..++.    ..-....-++...|-+++|
T Consensus       117 g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  117 GKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             ccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            4444444445555443 3444455555555556666666555555555433 12222    1222223334456666666


Q ss_pred             HHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc---CCCCChhhHHHHHHHHHhcCChhHHH
Q 036731          106 TRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA---GLMPNVVTYNITIHALCNDEQMDKAH  182 (259)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~~~~~~a~  182 (259)
                      ++.-++..+.+..       |.-...+....+.-.|++.++.+++.+-...   +-..-...|-...-.+...+.++.|+
T Consensus       195 Ek~A~ralqiN~~-------D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~al  267 (491)
T KOG2610|consen  195 EKQADRALQINRF-------DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKAL  267 (491)
T ss_pred             HHHHHhhccCCCc-------chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHH
Confidence            6665555443221       3445555555555666666666655443221   00001112222222333446666666


Q ss_pred             HHHHH
Q 036731          183 DLFLD  187 (259)
Q Consensus       183 ~~~~~  187 (259)
                      .+|+.
T Consensus       268 eIyD~  272 (491)
T KOG2610|consen  268 EIYDR  272 (491)
T ss_pred             HHHHH
Confidence            66653

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.14  E-value=0.13  Score=38.48  Aligned_cols=78  Identities=14%  Similarity=0.095  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHh-----cCCCCcHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEV-----KGVAPNCVIFTT  202 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~p~~~~~~~  202 (259)
                      .++..++..+...|+.+.+...++++.... +-+...|..++.+|.+.|+...|...|+.+..     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            566667777777777888888888777764 33677788888888888888888877777654     377777776665


Q ss_pred             HHHH
Q 036731          203 LMPS  206 (259)
Q Consensus       203 l~~~  206 (259)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5555

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.12  E-value=0.02  Score=44.60  Aligned_cols=238  Identities=16%  Similarity=0.049  Sum_probs=145.0

Q ss_pred             CCHHHHHHHHHH--HHhcCChHHHHHHHHHHhhCCCCCc----hHhHHHHHHHHhhcCChhHHHHHHHHH--H--HcCCC
Q 036731           14 PNTVTYNTIIDG--LCKEGFVDKAKELFLQMKDENINPN----VVTYNSLIHGFCYANDGNEAEYLFIEM--M--DRGLQ   83 (259)
Q Consensus        14 ~~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~--~--~~~~~   83 (259)
                      .+...+..-+.+  +++.|+......+|+...+-|.. |    ...|..|.++|.-.+++++|+++...=  .  ..|-+
T Consensus        13 q~~SCleLalEGERLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdk   91 (639)
T KOG1130|consen   13 QDRSCLELALEGERLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDK   91 (639)
T ss_pred             hhhHHHHHHHHHHHHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcch
Confidence            344455555544  78999999999999999988743 4    345777888888999999999886421  1  12222


Q ss_pred             Cc-hhhHHHHHHHHHHcCCHHHHHHHHHH-H---HhCCCCCCCccchhHHHHHHHHHHHHhcCC----------------
Q 036731           84 SD-VVTFNVIMDELCKNRKMDEATRLLDL-M---IQGGVRPDAFCEINIVAYGCLIDGLCKIGK----------------  142 (259)
Q Consensus        84 ~~-~~~~~~l~~~~~~~~~~~~a~~~~~~-~---~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------------  142 (259)
                      .. ......|.+.+--.|.+++|.-...+ +   .+.|-...     ....+..+...|...|+                
T Consensus        92 lGEAKssgNLGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~-----e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~e  166 (639)
T KOG1130|consen   92 LGEAKSSGNLGNTLKVKGAFDEALTCCFRHLDFARELGDRVL-----ESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAE  166 (639)
T ss_pred             hccccccccccchhhhhcccchHHHHHHHHhHHHHHHhHHHh-----hhHHHhhhhhhhhhcccccCCCChhhcccccHH
Confidence            21 22333444555555666666543222 1   12222111     22566677777765553                


Q ss_pred             ----hHHHHHHHHHH----HHcCC-CCChhhHHHHHHHHHhcCChhHHHHHHHHHH----hcCCC-CcHHHHHHHHHHHH
Q 036731          143 ----LKNARELSQSL----TRAGL-MPNVVTYNITIHALCNDEQMDKAHDLFLDME----VKGVA-PNCVIFTTLMPSFI  208 (259)
Q Consensus       143 ----~~~a~~~~~~~----~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~----~~~~~-p~~~~~~~l~~~~~  208 (259)
                          ++.|.++|.+=    .+.|- -.....|..|...|.-.|+++.|....+.-.    +.|-+ .....+..+..++.
T Consensus       167 v~~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hi  246 (639)
T KOG1130|consen  167 VTSALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHI  246 (639)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhh
Confidence                23344444332    12221 1123467777777778899999887665432    22321 22356778888999


Q ss_pred             hcCCHHHHHHHHHHHh----hCC-CccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          209 RKNETSKVIELLRSMD----KRN-VMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       209 ~~~~~~~a~~~~~~~~----~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      -.|+++.|.+.++...    +.| -........++...|.-..++++|+.++.+
T Consensus       247 flg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~r  300 (639)
T KOG1130|consen  247 FLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQR  300 (639)
T ss_pred             hhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            9999999999888643    222 123445666788888888888888887754

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.07  E-value=0.42  Score=35.88  Aligned_cols=145  Identities=13%  Similarity=0.054  Sum_probs=78.6

Q ss_pred             HHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh
Q 036731           60 GFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK  139 (259)
Q Consensus        60 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  139 (259)
                      .....|++.+|...|......... +...-..+..+|...|+.+.|..++..+....-..      .......-|..+.+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~------~~~~l~a~i~ll~q  215 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDK------AAHGLQAQIELLEQ  215 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhh------HHHHHHHHHHHHHH
Confidence            345667777777777776655322 34445556777777777777777777654332111      11222233445555


Q ss_pred             cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhcCCH
Q 036731          140 IGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG-VAPNCVIFTTLMPSFIRKNET  213 (259)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~  213 (259)
                      .....+...+-.+.-..  +-|...-..+...+...|+.+.|.+.+-.+...+ -.-|...-..|+..+.-.|.-
T Consensus       216 aa~~~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~  288 (304)
T COG3118         216 AAATPEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPA  288 (304)
T ss_pred             HhcCCCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCC
Confidence            55555555554444432  1144455556666677777777777665555441 122344555566665555533

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.01  E-value=0.44  Score=35.75  Aligned_cols=154  Identities=15%  Similarity=0.125  Sum_probs=106.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 036731           93 MDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHAL  172 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  172 (259)
                      .......|++.+|...|.........       +...-..+..+|...|+.+.|..++..+...--.........-|..+
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~~~-------~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll  213 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAAPE-------NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELL  213 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhCcc-------cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHH
Confidence            34566789999999999998875433       33678889999999999999999999876542221222223344555


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-ccchHHHHHHHHHHHHhcccCCc
Q 036731          173 CNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNV-MPYASILSIIVDLLVKNEISLNS  251 (259)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a  251 (259)
                      .+.....+..++-++.-..  +-|...-..+...+...|+.+.|.+.+-.+.+++. .-+...-..+++.+.--|..+.+
T Consensus       214 ~qaa~~~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~  291 (304)
T COG3118         214 EQAAATPEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPL  291 (304)
T ss_pred             HHHhcCCCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHH
Confidence            5555555555555555543  33667777788889999999999988877665422 23566777788888877766554


Q ss_pred             chhh
Q 036731          252 IPQF  255 (259)
Q Consensus       252 ~~~~  255 (259)
                      ...+
T Consensus       292 ~~~~  295 (304)
T COG3118         292 VLAY  295 (304)
T ss_pred             HHHH
Confidence            4433

>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=95.93  E-value=0.32  Score=33.42  Aligned_cols=29  Identities=10%  Similarity=0.290  Sum_probs=13.6

Q ss_pred             HHHHHHcCCCCchhhHHHHHHHHHHcCCH
Q 036731           74 FIEMMDRGLQSDVVTFNVIMDELCKNRKM  102 (259)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  102 (259)
                      +..+.+.+++|+...+..+++.+.+.|++
T Consensus        17 irSl~~~~i~~~~~L~~lli~lLi~~~~~   45 (167)
T PF07035_consen   17 IRSLNQHNIPVQHELYELLIDLLIRNGQF   45 (167)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Confidence            33334444444444455555555554443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.86  E-value=0.046  Score=28.09  Aligned_cols=29  Identities=17%  Similarity=0.217  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      .++..+...|...|++++|.+++++..+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            35566666677777777777777776665

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.82  E-value=0.73  Score=39.65  Aligned_cols=174  Identities=15%  Similarity=0.182  Sum_probs=103.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHH----HHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 036731           21 TIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLI----HGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDEL   96 (259)
Q Consensus        21 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   96 (259)
                      .-|....+...++-|..+-+.-   +  .+..+...+.    ..+.+.|++++|...|-+-... +.|..     ++.-|
T Consensus       339 ~kL~iL~kK~ly~~Ai~LAk~~---~--~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s~-----Vi~kf  407 (933)
T KOG2114|consen  339 TKLDILFKKNLYKVAINLAKSQ---H--LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPSE-----VIKKF  407 (933)
T ss_pred             HHHHHHHHhhhHHHHHHHHHhc---C--CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChHH-----HHHHh
Confidence            3455555666666666655332   2  2333333333    4456789999988887766644 33322     55556


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 036731           97 CKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDE  176 (259)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  176 (259)
                      .........-.+++.+.+.|+...       ..-+.|+.+|.+.++.++-.++.+... .|..  ..-....+..+.+.+
T Consensus       408 Ldaq~IknLt~YLe~L~~~gla~~-------dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~sn  477 (933)
T KOG2114|consen  408 LDAQRIKNLTSYLEALHKKGLANS-------DHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSN  477 (933)
T ss_pred             cCHHHHHHHHHHHHHHHHcccccc-------hhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhC
Confidence            666677777778888888877643       566788888999888888777766544 2221  111344556666666


Q ss_pred             ChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 036731          177 QMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSM  223 (259)
Q Consensus       177 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  223 (259)
                      -.++|..+-.+...     +......++   -..+++++|.+.++.+
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            66666655443322     233333333   3456677777766544

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.81  E-value=0.96  Score=37.98  Aligned_cols=84  Identities=10%  Similarity=0.046  Sum_probs=43.5

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccc-----------h
Q 036731          164 TYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPY-----------A  232 (259)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------~  232 (259)
                      +...+..-+-+...+..|-++|.+|-+.         ..++......++|.+|..+-+...+.  .|+           .
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~  817 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAEN  817 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhh
Confidence            3333333344445555666666555422         23455556667777776666654432  111           1


Q ss_pred             HHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          233 SILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       233 ~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      .-|...-++|.+.|+..||..+++++
T Consensus       818 DrFeEAqkAfhkAGr~~EA~~vLeQL  843 (1081)
T KOG1538|consen  818 DRFEEAQKAFHKAGRQREAVQVLEQL  843 (1081)
T ss_pred             hhHHHHHHHHHHhcchHHHHHHHHHh
Confidence            22344455666666666666666543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.81  E-value=0.5  Score=34.72  Aligned_cols=164  Identities=10%  Similarity=0.061  Sum_probs=105.5

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTY  165 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  165 (259)
                      ...|+.-+ .-.+.|++++|.+.|+.+...-....    ....+...++-++.+.+++++|...+++....-......-|
T Consensus        35 ~~LY~~g~-~~L~~gn~~~A~~~fe~l~~~~p~s~----~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY  109 (254)
T COG4105          35 SELYNEGL-TELQKGNYEEAIKYFEALDSRHPFSP----YSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADY  109 (254)
T ss_pred             HHHHHHHH-HHHhcCCHHHHHHHHHHHHHcCCCCc----ccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhH
Confidence            33444333 34578999999999999985432221    24577888889999999999999999998876322222344


Q ss_pred             HHHHHHHHh-------cCChh---HHHHHHHHHHhc----CCCCcHHHHH------------HHHHHHHhcCCHHHHHHH
Q 036731          166 NITIHALCN-------DEQMD---KAHDLFLDMEVK----GVAPNCVIFT------------TLMPSFIRKNETSKVIEL  219 (259)
Q Consensus       166 ~~li~~~~~-------~~~~~---~a~~~~~~~~~~----~~~p~~~~~~------------~l~~~~~~~~~~~~a~~~  219 (259)
                      ...|.+++.       ..+..   .|..-|++++..    ...||...--            .+.+.|.+.|.+-.|..-
T Consensus       110 ~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR  189 (254)
T COG4105         110 AYYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINR  189 (254)
T ss_pred             HHHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHH
Confidence            444554442       22333   444555555544    2223332211            244678899999999999


Q ss_pred             HHHHhhCC--CccchHHHHHHHHHHHHhcccCCcchh
Q 036731          220 LRSMDKRN--VMPYASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       220 ~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      +++|++.-  ..-....+..+..+|...|..++|.+.
T Consensus       190 ~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~  226 (254)
T COG4105         190 FEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKT  226 (254)
T ss_pred             HHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHH
Confidence            99998761  122344566788889999988777553

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.81  E-value=0.45  Score=40.83  Aligned_cols=141  Identities=16%  Similarity=0.195  Sum_probs=93.5

Q ss_pred             HHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHH
Q 036731           24 DGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMD  103 (259)
Q Consensus        24 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  103 (259)
                      .-+.+.|++++|...|-+-... +.|+     .+|.-|....+..+-..+++.+.+.|+. +...-..|+.+|.+.++.+
T Consensus       376 d~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~  448 (933)
T KOG2114|consen  376 DYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVE  448 (933)
T ss_pred             HHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchH
Confidence            4455789999999888776543 2332     3556667777788888889999998876 5555678999999999998


Q ss_pred             HHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHH
Q 036731          104 EATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHD  183 (259)
Q Consensus       104 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  183 (259)
                      +..++.+... .|..-        .-....+..+.+.+-.++|..+-.....     +......+   +...+++++|++
T Consensus       449 kL~efI~~~~-~g~~~--------fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~il---le~~~ny~eAl~  511 (933)
T KOG2114|consen  449 KLTEFISKCD-KGEWF--------FDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDIL---LEDLHNYEEALR  511 (933)
T ss_pred             HHHHHHhcCC-Cccee--------eeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHH
Confidence            8777766543 22211        2345667777777777777776665443     22222222   345567778777


Q ss_pred             HHHHH
Q 036731          184 LFLDM  188 (259)
Q Consensus       184 ~~~~~  188 (259)
                      .+..+
T Consensus       512 yi~sl  516 (933)
T KOG2114|consen  512 YISSL  516 (933)
T ss_pred             HHhcC
Confidence            77654

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.75  E-value=0.56  Score=36.37  Aligned_cols=226  Identities=8%  Similarity=0.009  Sum_probs=121.8

Q ss_pred             hcCChHHHHHHHHHHhhC--CCCCchHhHHHHHHHHhhcCChhHHHHHHH----HHHHcC-CCCchhhHHHHHHHHHHcC
Q 036731           28 KEGFVDKAKELFLQMKDE--NINPNVVTYNSLIHGFCYANDGNEAEYLFI----EMMDRG-LQSDVVTFNVIMDELCKNR  100 (259)
Q Consensus        28 ~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~----~~~~~~-~~~~~~~~~~l~~~~~~~~  100 (259)
                      ...+.++|+..|..-..+  ...---.++..+..+.++.|.+++++..--    -..+.. -..--..|..+.+++-+..
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            456777777777665543  111123345556667777777776544321    111110 0011234445555555555


Q ss_pred             CHHHHHHHHHHHHh-CCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-----CCCChhhHHHHHHHHHh
Q 036731          101 KMDEATRLLDLMIQ-GGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG-----LMPNVVTYNITIHALCN  174 (259)
Q Consensus       101 ~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~li~~~~~  174 (259)
                      ++.+++.+-..-.. .|..|.   +..-.....+..++...+.++++++.|+...+.-     ......+|..|-+.|..
T Consensus        98 ~f~kt~~y~k~~l~lpgt~~~---~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~  174 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGLPGTRAG---QLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQ  174 (518)
T ss_pred             HhhhHHHHHHHHhcCCCCCcc---cccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHH
Confidence            55555555443221 122221   0112344456677777778888888887765421     11234467778888888


Q ss_pred             cCChhHHHHHHHHHHhc----CCCCc-----HHHHHHHHHHHHhcCCHHHHHHHHHHHhh----CCCcc-chHHHHHHHH
Q 036731          175 DEQMDKAHDLFLDMEVK----GVAPN-----CVIFTTLMPSFIRKNETSKVIELLRSMDK----RNVMP-YASILSIIVD  240 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~----~~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~  240 (259)
                      ..++++|.-+..+..+.    ++.--     ......+.-++...|....|.+..++..+    .|-.+ .......+.+
T Consensus       175 l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aD  254 (518)
T KOG1941|consen  175 LKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFAD  254 (518)
T ss_pred             HHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHH
Confidence            88888887776655432    21111     11222334456667777777777776543    33222 3344556677


Q ss_pred             HHHHhcccCCcchhhh
Q 036731          241 LLVKNEISLNSIPQFN  256 (259)
Q Consensus       241 ~~~~~g~~~~a~~~~~  256 (259)
                      .|...|+.+.|..-|+
T Consensus       255 IyR~~gd~e~af~rYe  270 (518)
T KOG1941|consen  255 IYRSRGDLERAFRRYE  270 (518)
T ss_pred             HHHhcccHhHHHHHHH
Confidence            7788888877666554

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.72  E-value=0.049  Score=27.99  Aligned_cols=27  Identities=15%  Similarity=0.164  Sum_probs=13.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhC
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQMKDE   45 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~~~~~   45 (259)
                      |..+...|.+.|++++|.++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444444555555555555555555443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.72  E-value=0.32  Score=31.77  Aligned_cols=93  Identities=18%  Similarity=0.035  Sum_probs=71.0

Q ss_pred             HHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHH---HHHHHHHcC
Q 036731           24 DGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNV---IMDELCKNR  100 (259)
Q Consensus        24 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~  100 (259)
                      -+.+..|+.+.|++.|.+...- .+-....||.-..++.-.|+.++|++=+++..+..-..+...+..   -...|...|
T Consensus        51 valaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            4567899999999999998765 345788999999999999999999999988876532324333333   334577788


Q ss_pred             CHHHHHHHHHHHHhCCC
Q 036731          101 KMDEATRLLDLMIQGGV  117 (259)
Q Consensus       101 ~~~~a~~~~~~~~~~~~  117 (259)
                      +.+.|..=|+..-+.|.
T Consensus       130 ~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGS  146 (175)
T ss_pred             chHHHHHhHHHHHHhCC
Confidence            88999888888777664

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.68  E-value=1.2  Score=38.01  Aligned_cols=64  Identities=11%  Similarity=0.131  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCC----CchHhHHHHHHHHhhcCChhHHHHHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENIN----PNVVTYNSLIHGFCYANDGNEAEYLFIEMMD   79 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~   79 (259)
                      ..+|..+..-.-..|+++.|..+++.=...+..    .+..-+...+.-+...|+.+-...++-.+..
T Consensus       507 ~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~  574 (829)
T KOG2280|consen  507 GISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKN  574 (829)
T ss_pred             ceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHH
Confidence            345777777777788888888877654333211    1233345555666777777777666665554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.49  E-value=0.045  Score=26.73  Aligned_cols=23  Identities=26%  Similarity=0.213  Sum_probs=13.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHH
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQ   41 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~   41 (259)
                      |+.|...|.+.|++++|+++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            45555666666666666666655

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.47  E-value=1.4  Score=37.55  Aligned_cols=108  Identities=9%  Similarity=0.156  Sum_probs=81.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      -+.+--+.-+...|+..+|.++-.+.+    .||-..|-.-+.+++..+++++-+++-+..+      ++.-|.-++.+|
T Consensus       685 lSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c  754 (829)
T KOG2280|consen  685 LSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEAC  754 (829)
T ss_pred             CcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHH
Confidence            345555666777888899988887765    4688899999999999999998877765544      245677889999


Q ss_pred             HhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchh
Q 036731          208 IRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       208 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      .+.|+.++|.+++.+....     .    -...+|.+.|++.+|.+.
T Consensus       755 ~~~~n~~EA~KYiprv~~l-----~----ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  755 LKQGNKDEAKKYIPRVGGL-----Q----EKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             HhcccHHHHhhhhhccCCh-----H----HHHHHHHHhccHHHHHHH
Confidence            9999999999988655321     1    466677788888777654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.33  E-value=1.1  Score=35.30  Aligned_cols=127  Identities=15%  Similarity=0.168  Sum_probs=80.8

Q ss_pred             HHHHHHHHH--hcCChHHHHHHHHHHhhCCCCCchHhHHHHHHH--HhhcCChhHHHHHHHHHHHcCCCCchhh--HHHH
Q 036731           19 YNTIIDGLC--KEGFVDKAKELFLQMKDENINPNVVTYNSLIHG--FCYANDGNEAEYLFIEMMDRGLQSDVVT--FNVI   92 (259)
Q Consensus        19 ~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l   92 (259)
                      |.+|-.++.  -.|+-..|.+.-.+..+. +..|....-.++.+  ..-.|+++.|.+-|+.|.+.   |....  ...|
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgL  160 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGL  160 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHH
Confidence            444444433  356666666665554322 23344444445443  34569999999999999863   22221  2233


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731           93 MDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      .-.-.+.|+.+.|.+.-+.........       ...+...+...+..|+|+.|+++++.-...
T Consensus       161 yleAqr~GareaAr~yAe~Aa~~Ap~l-------~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~  217 (531)
T COG3898         161 YLEAQRLGAREAARHYAERAAEKAPQL-------PWAARATLEARCAAGDWDGALKLVDAQRAA  217 (531)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhhccCC-------chHHHHHHHHHHhcCChHHHHHHHHHHHHH
Confidence            333456788888888887766543322       378889999999999999999999876543

>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=95.21  E-value=0.51  Score=30.93  Aligned_cols=59  Identities=20%  Similarity=0.147  Sum_probs=22.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 036731          133 LIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG  192 (259)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  192 (259)
                      .+......|.-++-.+++..+.+.+ .+++...-.+..+|.+.|+..++.+++++.-+.|
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            3344444444444444444443321 2333344444444444444444444444444443

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.21  E-value=0.54  Score=31.28  Aligned_cols=127  Identities=13%  Similarity=0.129  Sum_probs=87.4

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 036731           89 FNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNIT  168 (259)
Q Consensus        89 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  168 (259)
                      ...++..+...+.......+++.+...+. .      +...++.++..|++.+. .+....++.      ..+......+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~------~~~~~~~li~ly~~~~~-~~ll~~l~~------~~~~yd~~~~   75 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS-E------NPALQTKLIELYAKYDP-QKEIERLDN------KSNHYDIEKV   75 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc-c------chhHHHHHHHHHHHHCH-HHHHHHHHh------ccccCCHHHH
Confidence            34577777788889999999999887753 2      45799999999987643 444444442      1244556668


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc-CCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHH
Q 036731          169 IHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRK-NETSKVIELLRSMDKRNVMPYASILSIIVDLLVK  244 (259)
Q Consensus       169 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  244 (259)
                      ++.|.+.+.++++..++.++..         +...+..+... ++++.|.+++.+-      .+...|..++..+..
T Consensus        76 ~~~c~~~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l~  137 (140)
T smart00299       76 GKLCEKAKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALLD  137 (140)
T ss_pred             HHHHHHcCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHHc
Confidence            8888899999999888877632         22233333334 8888888888752      255678888777654

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.17  E-value=0.068  Score=26.05  Aligned_cols=24  Identities=17%  Similarity=0.033  Sum_probs=14.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHH
Q 036731          130 YGCLIDGLCKIGKLKNARELSQSL  153 (259)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~  153 (259)
                      |..|...|.+.|++++|..+|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            556666666666666666666663

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=95.10  E-value=0.27  Score=30.05  Aligned_cols=43  Identities=9%  Similarity=0.162  Sum_probs=20.8

Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 036731          182 HDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMD  224 (259)
Q Consensus       182 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (259)
                      .+-++.+....+-|++.+..+.+++|.+.+++..|.++|+-.+
T Consensus        27 rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          27 RRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3333444444444555555555555555555555555554443

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.08  E-value=1.2  Score=34.36  Aligned_cols=156  Identities=13%  Similarity=0.093  Sum_probs=105.1

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC
Q 036731           63 YANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK  142 (259)
Q Consensus        63 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  142 (259)
                      ..|++.+|-..++++.+. .+.|...+.-.=.+|.-.|+.+.-...++++... -.++.  +....+...+.-++...|-
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dl--p~~sYv~GmyaFgL~E~g~  190 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADL--PCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCC--cHHHHHHHHHHhhHHHhcc
Confidence            457777888888888876 4557777777788899999988888888888643 12221  0112233344445567899


Q ss_pred             hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc---CCCCcHHHHHHHHHHHHhcCCHHHHHHH
Q 036731          143 LKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK---GVAPNCVIFTTLMPSFIRKNETSKVIEL  219 (259)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~a~~~  219 (259)
                      +++|++.-++..+.+ +.|.-.-.+....+...|+..++.+++.+-...   +-..-.+.|-...-.+...+.++.|.++
T Consensus       191 y~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleI  269 (491)
T KOG2610|consen  191 YDDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEI  269 (491)
T ss_pred             chhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHH
Confidence            999999988887764 235555666777777888898888887664332   1111223444555566677999999999


Q ss_pred             HHHH
Q 036731          220 LRSM  223 (259)
Q Consensus       220 ~~~~  223 (259)
                      |++-
T Consensus       270 yD~e  273 (491)
T KOG2610|consen  270 YDRE  273 (491)
T ss_pred             HHHH
Confidence            9763

>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=95.05  E-value=0.71  Score=31.76  Aligned_cols=136  Identities=16%  Similarity=0.140  Sum_probs=85.0

Q ss_pred             HHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 036731           35 AKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQ  114 (259)
Q Consensus        35 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  114 (259)
                      ..+.++.+.+.+++|+...+..++..+.+.|++....    .+...++-+|.......+-.+.  +....+.++--.|.+
T Consensus        13 llEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLk   86 (167)
T PF07035_consen   13 LLEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLK   86 (167)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHH
Confidence            3566667777899999999999999999999876644    4445666666655554443332  233334444333332


Q ss_pred             CCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 036731          115 GGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEV  190 (259)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  190 (259)
                      . ..         ..+..++..+...|++-+|.++.+.....    +......++.+..+.++...-..+++-..+
T Consensus        87 R-L~---------~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   87 R-LG---------TAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             H-hh---------hhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1 00         25677788888888888888888775332    222335566666666666555555554444

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.00  E-value=1.5  Score=35.21  Aligned_cols=143  Identities=15%  Similarity=0.200  Sum_probs=88.6

Q ss_pred             HHhcCChHHHHHHHHHHhhCCCCCc------hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH--HH
Q 036731           26 LCKEGFVDKAKELFLQMKDENINPN------VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE--LC   97 (259)
Q Consensus        26 ~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~   97 (259)
                      +.+.+++.+|.++|.+..+.. ..+      ...-+.++++|.. ++.+.....+..+.+.  .| ...|-.+..+  +.
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHH
Confidence            457899999999999987652 212      2334566777765 4566655566566554  22 3344445444  45


Q ss_pred             HcCCHHHHHHHHHHHHhC--CCCCCCc------cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC----CCChhhH
Q 036731           98 KNRKMDEATRLLDLMIQG--GVRPDAF------CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGL----MPNVVTY  165 (259)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~--~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~  165 (259)
                      +.+++.+|.+.+..=...  +..+.-.      .-+|-..=+..+.++...|++.++..+++++...=.    .-+..+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            778899998887665443  2222100      111223335567778899999999999999876533    3677788


Q ss_pred             HHHHHHHH
Q 036731          166 NITIHALC  173 (259)
Q Consensus       166 ~~li~~~~  173 (259)
                      +.++-.++
T Consensus       171 d~~vlmls  178 (549)
T PF07079_consen  171 DRAVLMLS  178 (549)
T ss_pred             HHHHHHHh
Confidence            77554444

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK11906 transcriptional regulator; Provisional

Probab=95.00  E-value=1.5  Score=35.31  Aligned_cols=160  Identities=12%  Similarity=0.081  Sum_probs=98.1

Q ss_pred             hhH--HHHHHHHHHc-----CCHHHHHHHHHHHH-hCCCCCCCccchhHHHHHHHHHHHHh---------cCChHHHHHH
Q 036731           87 VTF--NVIMDELCKN-----RKMDEATRLLDLMI-QGGVRPDAFCEINIVAYGCLIDGLCK---------IGKLKNAREL  149 (259)
Q Consensus        87 ~~~--~~l~~~~~~~-----~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~---------~~~~~~a~~~  149 (259)
                      ..|  ...+++....     ...+.|..+|.+.. .....|+     ....|..+..++..         ..+..+|.++
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~-----~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~  326 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTL-----KTECYCLLAECHMSLALHGKSELELAAQKALEL  326 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcc-----cHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHH
Confidence            445  5555554442     23467888888877 2234444     24555555444432         2235567777


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcH-HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 036731          150 SQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNC-VIFTTLMPSFIRKNETSKVIELLRSMDKRNV  228 (259)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  228 (259)
                      .+...+.+.. |......+..+....++++.|..+|++....  .||. .+|......+.-.|+.++|.+.+++..+..+
T Consensus       327 A~rAveld~~-Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP  403 (458)
T PRK11906        327 LDYVSDITTV-DGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQLEP  403 (458)
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCc
Confidence            7777777643 7777777777777788899999999998876  4553 4555555566678999999999998766532


Q ss_pred             cc-chHHHHHHHHHHHHhcccCCcchhh
Q 036731          229 MP-YASILSIIVDLLVKNEISLNSIPQF  255 (259)
Q Consensus       229 ~~-~~~~~~~l~~~~~~~g~~~~a~~~~  255 (259)
                      .- -..+....++.|+.++ .++|+++|
T Consensus       404 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~  430 (458)
T PRK11906        404 RRRKAVVIKECVDMYVPNP-LKNNIKLY  430 (458)
T ss_pred             hhhHHHHHHHHHHHHcCCc-hhhhHHHH
Confidence            21 2223333444555443 35555544

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.85  E-value=0.97  Score=32.29  Aligned_cols=167  Identities=15%  Similarity=0.025  Sum_probs=75.2

Q ss_pred             HhHHHHHHHHhhcCChhHHHHHHHHHHHc-CCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHH
Q 036731           52 VTYNSLIHGFCYANDGNEAEYLFIEMMDR-GLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAY  130 (259)
Q Consensus        52 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  130 (259)
                      ..+......+...+++..+...+...... ........+......+...+.+..+...+.........+.       ...
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~  132 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-------LAE  132 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-------hHH
Confidence            44444445555555555555555544431 1222334444444455555555555555555544322221       112


Q ss_pred             HHHHH-HHHhcCChHHHHHHHHHHHHcCC--CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC-cHHHHHHHHHH
Q 036731          131 GCLID-GLCKIGKLKNARELSQSLTRAGL--MPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAP-NCVIFTTLMPS  206 (259)
Q Consensus       131 ~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~  206 (259)
                      ..... .+...|+++.+...+.+......  ......+......+...++.+.+...+....... .. ....+..+...
T Consensus       133 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~  211 (291)
T COG0457         133 ALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN-PDDDAEALLNLGLL  211 (291)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHH
Confidence            22222 45555555555555555533211  0112222222223344555555555555555441 11 23444455555


Q ss_pred             HHhcCCHHHHHHHHHHHhhC
Q 036731          207 FIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       207 ~~~~~~~~~a~~~~~~~~~~  226 (259)
                      +...+.++.+...+......
T Consensus       212 ~~~~~~~~~a~~~~~~~~~~  231 (291)
T COG0457         212 YLKLGKYEEALEYYEKALEL  231 (291)
T ss_pred             HHHcccHHHHHHHHHHHHhh
Confidence            55555555555555555443

>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=94.81  E-value=0.52  Score=33.34  Aligned_cols=78  Identities=17%  Similarity=0.109  Sum_probs=46.8

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh---CCCccchHHHHHHHHHHHHhccc
Q 036731          172 LCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK---RNVMPYASILSIIVDLLVKNEIS  248 (259)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~g~~  248 (259)
                      +.+.|+ +.|.+.|-.+...+.--++.....|...|. ..+.+++.+++.+..+   .+-.+++..+.+|+..+.+.|+.
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            344444 566666666666554445555555555554 4566777777766553   23356677777777777777776


Q ss_pred             CCc
Q 036731          249 LNS  251 (259)
Q Consensus       249 ~~a  251 (259)
                      +.|
T Consensus       195 e~A  197 (203)
T PF11207_consen  195 EQA  197 (203)
T ss_pred             hhh
Confidence            655

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=94.74  E-value=2.2  Score=35.96  Aligned_cols=198  Identities=15%  Similarity=0.138  Sum_probs=108.2

Q ss_pred             ccccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHH-----HHHHHhhcCChhHHHHHHHHHHHcCC
Q 036731            8 FGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNS-----LIHGFCYANDGNEAEYLFIEMMDRGL   82 (259)
Q Consensus         8 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----li~~~~~~~~~~~a~~~~~~~~~~~~   82 (259)
                      -.+|..|+...   +...++-.|++.+|-++|.+--.++  .-...|+-     ...-+...|+.++-..+.++-.+.  
T Consensus       627 k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~en--RAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~W--  699 (1081)
T KOG1538|consen  627 KKRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGHEN--RALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADW--  699 (1081)
T ss_pred             HhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCchh--hHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHH--
Confidence            34455566543   3455677888888888886542220  01111111     112233344444333333222111  


Q ss_pred             CCchhhHHHHHHHHHHcCCHHHHHHHHH------HHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731           83 QSDVVTFNVIMDELCKNRKMDEATRLLD------LMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus        83 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~------~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      ..+..-=.+....+...|+.++|..+.-      -+.+.+.+.+.   .+..+...+...+.+...+..|.++|..|-+.
T Consensus       700 Ar~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~---~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~  776 (1081)
T KOG1538|consen  700 ARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDK---AEREPLLLCATYLKKLDSPGLAAEIFLKMGDL  776 (1081)
T ss_pred             hhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcch---hhhhHHHHHHHHHhhccccchHHHHHHHhccH
Confidence            0011111223445556677666655432      11122212211   13355666666666777788888898887542


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHH-----------HHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          157 GLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCV-----------IFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       157 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~-----------~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                               ..+++.....+++++|..+-++..+.  .||+.           -|...-.+|.+.|+..+|.++++++..
T Consensus       777 ---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  777 ---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             ---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence                     34677778899999999998877654  34432           233344678889999999999998865


Q ss_pred             C
Q 036731          226 R  226 (259)
Q Consensus       226 ~  226 (259)
                      .
T Consensus       846 n  846 (1081)
T KOG1538|consen  846 N  846 (1081)
T ss_pred             h
Confidence            4

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.73  E-value=0.57  Score=29.04  Aligned_cols=61  Identities=11%  Similarity=0.139  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHH
Q 036731          180 KAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDL  241 (259)
Q Consensus       180 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  241 (259)
                      +..+-++.+....+-|++.+..+.+++|.+.+++..|.++|+-++.+ +.+....|..+++-
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lqE   88 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQE   88 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHHH
Confidence            44555555666667777777777777777777777777777766643 22223356655543

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 ....

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.64  E-value=0.96  Score=31.27  Aligned_cols=139  Identities=12%  Similarity=0.083  Sum_probs=93.7

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChh-h
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVV-T  164 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~  164 (259)
                      ...|...++ +.+.+..++|+.-|..+.+.|...-+     +-.-..........|+...|...|.++-.....|-.. -
T Consensus        59 gd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~Yp-----vLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd  132 (221)
T COG4649          59 GDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYP-----VLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRD  132 (221)
T ss_pred             hHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcch-----HHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhH
Confidence            344544444 34567789999999999988876432     2333444556678899999999999987765444433 1


Q ss_pred             HHHHHH--HHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCcc
Q 036731          165 YNITIH--ALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP  230 (259)
Q Consensus       165 ~~~li~--~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  230 (259)
                      ...|=.  .+...|.++....-.+-+-..+-+.-...-..|.-+-.+.|++..|.+.|.++.+..-.|
T Consensus       133 ~ARlraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         133 LARLRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            222222  345788888888877777655544444455667777789999999999999987644344

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.63  E-value=0.26  Score=37.29  Aligned_cols=109  Identities=17%  Similarity=0.286  Sum_probs=79.0

Q ss_pred             cccccccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhC---CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcC
Q 036731            5 NREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDE---NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG   81 (259)
Q Consensus         5 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~   81 (259)
                      .+-|.+|...++.+-..++..-....+++.+...+-+++.+   -..|+... ...++.+ ..-++++++.++..=.+-|
T Consensus        53 ~kkF~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irll-lky~pq~~i~~l~npIqYG  130 (418)
T KOG4570|consen   53 DKKFERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLL-LKYDPQKAIYTLVNPIQYG  130 (418)
T ss_pred             hhhhhcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHH-HccChHHHHHHHhCcchhc
Confidence            34566777777777777777777788899998888777654   11222221 2223322 3346778888888888899


Q ss_pred             CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 036731           82 LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        82 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  115 (259)
                      +-||..+++.+|+.+.+.+++.+|.++.-.|...
T Consensus       131 iF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  131 IFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             cccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999999999998887776643

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=94.63  E-value=0.77  Score=30.12  Aligned_cols=124  Identities=10%  Similarity=0.190  Sum_probs=66.1

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-C----------------C
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA-G----------------L  158 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~----------------~  158 (259)
                      ..-.|..++..++..+.....         +..-+|.+|--....-+-+-..++++.+-+. +                .
T Consensus        12 ~ildG~V~qGveii~k~v~Ss---------ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~NlKrVi~C~~~~   82 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNSS---------NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCGNLKRVIECYAKR   82 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHHS----------HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S-THHHHHHHHHT
T ss_pred             HHHhchHHHHHHHHHHHcCcC---------CccccceeeeecchhhchhHHHHHHHHHhhhcCchhhcchHHHHHHHHHh
Confidence            344677888888887776532         2244444443333333333333333333211 0                0


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc
Q 036731          159 MPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVM  229 (259)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  229 (259)
                      ..+.......+......|.-++-.+++.++.+.+ .+++...-.+..+|.+.|+..++.+++++.-+.|++
T Consensus        83 n~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   83 NKLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             T---HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             cchHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            1133344555666777777777777777776432 566777777888888888888888888888777764

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=94.46  E-value=2  Score=34.10  Aligned_cols=171  Identities=13%  Similarity=0.063  Sum_probs=109.7

Q ss_pred             CCHHHHHHHH-HHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhh----
Q 036731           14 PNTVTYNTII-DGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVT----   88 (259)
Q Consensus        14 ~~~~~~~~ll-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----   88 (259)
                      |...+|..+- ..+.-.|++++|.++--..++.. ..+......--.++...++.+.+..-|++.+..+  |+...    
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~  242 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSA  242 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhH
Confidence            4445555443 34556788888888877766542 1122222222234455678888888888887653  33322    


Q ss_pred             ---------HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 036731           89 ---------FNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM  159 (259)
Q Consensus        89 ---------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  159 (259)
                               +..=.+-..+.|.+..|.+.|.+.+..  .|+. ..++...|........+.|+.++|+.--+...+.+..
T Consensus       243 ~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~i--dP~n-~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~s  319 (486)
T KOG0550|consen  243 SMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNI--DPSN-KKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSS  319 (486)
T ss_pred             hhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcC--Cccc-cchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHH
Confidence                     122223356789999999999887764  4443 4667788999999999999999999888887765211


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          160 PNVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                       -...|..-..++...++|++|.+-++...+.
T Consensus       320 -yikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  320 -YIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence             1122333334555678888888888887765

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.42  E-value=1.4  Score=32.30  Aligned_cols=201  Identities=14%  Similarity=0.132  Sum_probs=112.8

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCch------HhHHHHHHHHhhcCChhHHHHHHHHHH----HcCCCCc
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNV------VTYNSLIHGFCYANDGNEAEYLFIEMM----DRGLQSD   85 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~~~~~~~~~~a~~~~~~~~----~~~~~~~   85 (259)
                      ...|..-..+|...+++++|...+.+..+- .+-|.      ..|...+-..-....+.++..++++..    +.| .|+
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~G-spd  108 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECG-SPD  108 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhC-Ccc
Confidence            345666677888889999998877776531 12222      233333444445556666777776553    333 334


Q ss_pred             hhhHHHHHH--HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCC
Q 036731           86 VVTFNVIMD--ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA----GLM  159 (259)
Q Consensus        86 ~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~  159 (259)
                      ..... |-.  -....-++++|+++|++....-...+. .+.-...+...-+.+.+...+++|-..+.+-...    .--
T Consensus       109 tAAma-leKAak~lenv~Pd~AlqlYqralavve~~dr-~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y  186 (308)
T KOG1585|consen  109 TAAMA-LEKAAKALENVKPDDALQLYQRALAVVEEDDR-DQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAY  186 (308)
T ss_pred             hHHHH-HHHHHHHhhcCCHHHHHHHHHHHHHHHhccch-HHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhc
Confidence            32211 111  123455677888888765432111110 1112345556666677777777776665543211    111


Q ss_pred             CCh-hhHHHHHHHHHhcCChhHHHHHHHHHHhc---CCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Q 036731          160 PNV-VTYNITIHALCNDEQMDKAHDLFLDMEVK---GVAPNCVIFTTLMPSFIRKNETSKVIELLR  221 (259)
Q Consensus       160 ~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  221 (259)
                      ++. ..|-..|-.+....++..|...++.--+.   .-.-+..+...|+.+| ..|+.+++.+++.
T Consensus       187 ~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  187 NSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             ccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHHc
Confidence            121 23455556666777899999998874433   2233567788888887 5688888877664

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.42  E-value=1.2  Score=33.91  Aligned_cols=104  Identities=18%  Similarity=0.224  Sum_probs=77.5

Q ss_pred             CCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcC---CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCC
Q 036731           45 ENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG---LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDA  121 (259)
Q Consensus        45 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  121 (259)
                      .|.+.+..+...++.......+++.+...+-+++.+-   ..|+.. -.+.++.|.+ -++++++.++..=++.|+.|+.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~-~~~~irlllk-y~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT-IHTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc-HHHHHHHHHc-cChHHHHHHHhCcchhccccch
Confidence            3666677777777777777888999999888887542   222222 2223444333 3677899998888899999865


Q ss_pred             ccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          122 FCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       122 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                            .+++.+|+.+.+.+++.+|.++...|...
T Consensus       136 ------f~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  136 ------FTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             ------hhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence                  99999999999999999999998887654

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.34  E-value=1.3  Score=31.59  Aligned_cols=204  Identities=13%  Similarity=0.000  Sum_probs=147.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhC-CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDE-NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      ...+......+...+++..+...+...... ........+......+...+++..+...+.........+ .........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHH
Confidence            566777888888999999999888887752 234466677777788888899999999999888764443 222333333


Q ss_pred             -HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 036731           95 -ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC  173 (259)
Q Consensus        95 -~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (259)
                       .+...|+++.|...+.+..........    ....+......+...++.+.+...+..............+..+...+.
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  213 (291)
T COG0457         138 GALYELGDYEEALELYEKALELDPELNE----LAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYL  213 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCccc----hHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHH
Confidence             788999999999999998552210011    234555555557788999999999999887632213567788888888


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          174 NDEQMDKAHDLFLDMEVKGVAPN-CVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      ..++++.+...+......  .|+ ...+..+...+...+..+.+...+.+....
T Consensus       214 ~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         214 KLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            899999999999998876  343 344444555555777899999998888765

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.30  E-value=0.93  Score=29.70  Aligned_cols=94  Identities=16%  Similarity=0.025  Sum_probs=59.1

Q ss_pred             HHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh
Q 036731           60 GFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK  139 (259)
Q Consensus        60 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  139 (259)
                      +.+..|+++.|++.|.+....- +.....||.-..++.-.|+.++|++=+++..+..-...   ..-...|..-...|..
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~t---rtacqa~vQRg~lyRl  127 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQT---RTACQAFVQRGLLYRL  127 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccc---hHHHHHHHHHHHHHHH
Confidence            4566778888888877777652 33566777777777777777777777766654322111   1122344444455666


Q ss_pred             cCChHHHHHHHHHHHHcC
Q 036731          140 IGKLKNARELSQSLTRAG  157 (259)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~  157 (259)
                      .|+-+.|..=|+...+.|
T Consensus       128 ~g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  128 LGNDDAARADFEAAAQLG  145 (175)
T ss_pred             hCchHHHHHhHHHHHHhC
Confidence            777777777777666655

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.07  E-value=1.2  Score=30.28  Aligned_cols=110  Identities=15%  Similarity=0.119  Sum_probs=66.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHH-HHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC
Q 036731          133 LIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNIT-IHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKN  211 (259)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  211 (259)
                      ++..-.+.++.+++..++..+.-.  .|.......+ ...+...|++.+|..+|+++.+.  .|....-..|+..|....
T Consensus        16 ~~~~al~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~--~~~~p~~kALlA~CL~~~   91 (160)
T PF09613_consen   16 VLSVALRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER--APGFPYAKALLALCLYAL   91 (160)
T ss_pred             HHHHHHccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHHc
Confidence            334456778999999999998875  4444333222 33467899999999999998876  455555556665555443


Q ss_pred             CHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccC
Q 036731          212 ETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISL  249 (259)
Q Consensus       212 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  249 (259)
                      +-..=...-.++.+.+..|+.   ..++..+....+..
T Consensus        92 ~D~~Wr~~A~evle~~~d~~a---~~Lv~~Ll~~~~~~  126 (160)
T PF09613_consen   92 GDPSWRRYADEVLESGADPDA---RALVRALLARADLE  126 (160)
T ss_pred             CChHHHHHHHHHHhcCCChHH---HHHHHHHHHhcccc
Confidence            322333344556666544433   33444554444443

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.02  E-value=0.026  Score=37.82  Aligned_cols=84  Identities=13%  Similarity=0.071  Sum_probs=59.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCC
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRK  101 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  101 (259)
                      ++..+.+.+.+.....+++.+...+...+...++.++..|++.++.+...++++   .    .+..-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~---~----~~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK---T----SNNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT---S----SSSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc---c----ccccCHHHHHHHHHhcch
Confidence            567777788888888888888876656678888899999999888788877776   1    122333457777777777


Q ss_pred             HHHHHHHHHHH
Q 036731          102 MDEATRLLDLM  112 (259)
Q Consensus       102 ~~~a~~~~~~~  112 (259)
                      ++++.-++.++
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            77777766654

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.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=93.99  E-value=3.5  Score=35.22  Aligned_cols=47  Identities=11%  Similarity=0.116  Sum_probs=27.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhh-CCCccchHHHHHHHHHHHHhccc
Q 036731          202 TLMPSFIRKNETSKVIELLRSMDK-RNVMPYASILSIIVDLLVKNEIS  248 (259)
Q Consensus       202 ~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~  248 (259)
                      .|..--..-|..+.|.+.--.+.+ ..+-|...+|+.+.-+-+....+
T Consensus      1026 ilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raF 1073 (1189)
T KOG2041|consen 1026 ILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAF 1073 (1189)
T ss_pred             HHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhh
Confidence            333444456777777766555554 24567777787766555544444

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.98  E-value=3.3  Score=34.91  Aligned_cols=150  Identities=11%  Similarity=0.021  Sum_probs=91.9

Q ss_pred             hhHHHHHHHHHHHcCCCCchhhH-HHHHHH-HHHcCCHHHHHHHHHHHHh-------CCCCCCCccchhHHHHHHHHHHH
Q 036731           67 GNEAEYLFIEMMDRGLQSDVVTF-NVIMDE-LCKNRKMDEATRLLDLMIQ-------GGVRPDAFCEINIVAYGCLIDGL  137 (259)
Q Consensus        67 ~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~~~~~~~l~~~~  137 (259)
                      ...+.++++...+.|..-..... .....+ +....+.+.|+.+|+...+       .+..         .....+..+|
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~~~---------~a~~~lg~~Y  298 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKGLP---------PAQYGLGRLY  298 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhcCC---------ccccHHHHHH
Confidence            46788888888877633111111 112222 4466789999999998876       4422         4566777777


Q ss_pred             HhcC-----ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh-cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHH--Hh
Q 036731          138 CKIG-----KLKNARELSQSLTRAGLMPNVVTYNITIHALCN-DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF--IR  209 (259)
Q Consensus       138 ~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~--~~  209 (259)
                      .+..     +.+.|..++....+.|.+ +....-..+..... ..+...|.++|...-..|..+ ...+..++...  ..
T Consensus       299 ~~g~~~~~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~-A~~~la~~y~~G~gv  376 (552)
T KOG1550|consen  299 LQGLGVEKIDYEKALKLYTKAAELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHIL-AIYRLALCYELGLGV  376 (552)
T ss_pred             hcCCCCccccHHHHHHHHHHHHhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChH-HHHHHHHHHHhCCCc
Confidence            7643     667799999998888743 44333222222222 245789999999988887432 22222222111  13


Q ss_pred             cCCHHHHHHHHHHHhhCC
Q 036731          210 KNETSKVIELLRSMDKRN  227 (259)
Q Consensus       210 ~~~~~~a~~~~~~~~~~~  227 (259)
                      ..+...|..++++.-++|
T Consensus       377 ~r~~~~A~~~~k~aA~~g  394 (552)
T KOG1550|consen  377 ERNLELAFAYYKKAAEKG  394 (552)
T ss_pred             CCCHHHHHHHHHHHHHcc
Confidence            346788888888888877

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.93  E-value=0.81  Score=28.08  Aligned_cols=63  Identities=13%  Similarity=0.098  Sum_probs=49.6

Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          142 KLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      +.-++.+-++.+...++.|++....+.+++|.+.+++..|.++++..+.+ +..+...|..++.
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHH
Confidence            45567777888888888999999999999999999999999999988754 1224456666554

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.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=93.86  E-value=2.5  Score=33.03  Aligned_cols=204  Identities=7%  Similarity=0.018  Sum_probs=115.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHH----HhhC-CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc-CCCCc---hhh
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQ----MKDE-NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR-GLQSD---VVT   88 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~----~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~---~~~   88 (259)
                      +|..+..+.++.|.+++++..--.    ..+. .-..--..|-.+.+++.+.-++.+++.+-..-... |..|.   -..
T Consensus        45 ~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~  124 (518)
T KOG1941|consen   45 VLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQV  124 (518)
T ss_pred             HhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchh
Confidence            344555666666666665433211    1111 00111233444555555555555666555443321 22221   123


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHH----cCCCCChh-
Q 036731           89 FNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTR----AGLMPNVV-  163 (259)
Q Consensus        89 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~-  163 (259)
                      ..++..+....+.++++++.|+...+.....+. ......+|..+...|.+..|+++|.-+..+..+    .++. |.. 
T Consensus       125 ~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D-~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~-d~~~  202 (518)
T KOG1941|consen  125 SLSMGNAHLGLSVFQKALESFEKALRYAHNNDD-AMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLK-DWSL  202 (518)
T ss_pred             hhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCC-ceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcC-chhH
Confidence            345667777788899999999877643222111 112447899999999999999999887766543    2332 221 


Q ss_pred             hHH-----HHHHHHHhcCChhHHHHHHHHHHh----cCCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 036731          164 TYN-----ITIHALCNDEQMDKAHDLFLDMEV----KGVAP-NCVIFTTLMPSFIRKNETSKVIELLRSM  223 (259)
Q Consensus       164 ~~~-----~li~~~~~~~~~~~a~~~~~~~~~----~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~  223 (259)
                      -|.     .+.-++...|..-.|.+..++..+    .|-.| .......+.+.|...|+.+.|+.-+++.
T Consensus       203 kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  203 KYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            222     233445567777777777766543    34332 2234556678888899998888877754

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.48  E-value=4.4  Score=36.73  Aligned_cols=80  Identities=15%  Similarity=0.165  Sum_probs=43.8

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChh--hHHHHHH
Q 036731           93 MDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVV--TYNITIH  170 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~li~  170 (259)
                      ...+.....+++|.-.|+..-               -..-.+.+|..+|+|.+|+.+..++....   +..  +-..|..
T Consensus       946 a~hL~~~~~~~~Aal~Ye~~G---------------klekAl~a~~~~~dWr~~l~~a~ql~~~~---de~~~~a~~L~s 1007 (1265)
T KOG1920|consen  946 ADHLREELMSDEAALMYERCG---------------KLEKALKAYKECGDWREALSLAAQLSEGK---DELVILAEELVS 1007 (1265)
T ss_pred             HHHHHHhccccHHHHHHHHhc---------------cHHHHHHHHHHhccHHHHHHHHHhhcCCH---HHHHHHHHHHHH
Confidence            334445566666666665432               12234566667777777777766654321   211  1244556


Q ss_pred             HHHhcCChhHHHHHHHHHHh
Q 036731          171 ALCNDEQMDKAHDLFLDMEV  190 (259)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~  190 (259)
                      -+...++.-+|-++..+...
T Consensus      1008 ~L~e~~kh~eAa~il~e~~s 1027 (1265)
T KOG1920|consen 1008 RLVEQRKHYEAAKILLEYLS 1027 (1265)
T ss_pred             HHHHcccchhHHHHHHHHhc
Confidence            66666666666666655543

>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=93.46  E-value=1.3  Score=31.42  Aligned_cols=78  Identities=13%  Similarity=0.098  Sum_probs=56.4

Q ss_pred             HhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc---CCCCchhhHHHHHHHHHHcCCHH
Q 036731           27 CKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR---GLQSDVVTFNVIMDELCKNRKMD  103 (259)
Q Consensus        27 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~  103 (259)
                      .+.|+ +.|.+.|-.+...+.--++.....|...| ...+.+++.+++....+.   +-.+|+..+..|...+.+.++++
T Consensus       118 sr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY-~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e  195 (203)
T PF11207_consen  118 SRFGD-QEALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYE  195 (203)
T ss_pred             hccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchh
Confidence            34444 56788888887776554555555555444 478899999998887643   34678889999999999999988


Q ss_pred             HHH
Q 036731          104 EAT  106 (259)
Q Consensus       104 ~a~  106 (259)
                      .|-
T Consensus       196 ~AY  198 (203)
T PF11207_consen  196 QAY  198 (203)
T ss_pred             hhh
Confidence            773

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.39  E-value=0.28  Score=24.45  Aligned_cols=27  Identities=19%  Similarity=0.247  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHh
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMK   43 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~   43 (259)
                      .+++.|...|...|++++|..++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            455666666666666666666666554

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.37  E-value=6.1  Score=35.92  Aligned_cols=87  Identities=11%  Similarity=0.091  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      ..|.+....+.....+++|.-.|+..-+         ...-+.+|..+|+|.+|+.+..++.... .--..+-..|+.-+
T Consensus       940 ~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~~-de~~~~a~~L~s~L 1009 (1265)
T KOG1920|consen  940 VIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEGK-DELVILAEELVSRL 1009 (1265)
T ss_pred             HHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCCH-HHHHHHHHHHHHHH
Confidence            4555556666677788888877776433         2335777888888888888887765321 00111225667777


Q ss_pred             HhcCCHHHHHHHHHHHh
Q 036731          208 IRKNETSKVIELLRSMD  224 (259)
Q Consensus       208 ~~~~~~~~a~~~~~~~~  224 (259)
                      ...+++-+|.+++.+..
T Consensus      1010 ~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen 1010 VEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             HHcccchhHHHHHHHHh
Confidence            78888888888777654

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.27  E-value=0.31  Score=24.23  Aligned_cols=28  Identities=21%  Similarity=0.220  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTR  155 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~  155 (259)
                      .+++.+...|...|++++|..++++...
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            4566677777777777777777766543

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.26  E-value=3.2  Score=32.46  Aligned_cols=193  Identities=12%  Similarity=0.080  Sum_probs=93.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCC----CchhhHHHHHHHHH
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ----SDVVTFNVIMDELC   97 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~   97 (259)
                      ...+.-+.|+++...+........  .++...+..+...  +.++++++....+.....-..    .....|........
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~   79 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLV   79 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            356677888888866665555432  2344455554433  788888888888877654111    11223333333344


Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh-cCChHHHHHHHHHHHHc-----C----CCCChhhHHH
Q 036731           98 KNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK-IGKLKNARELSQSLTRA-----G----LMPNVVTYNI  167 (259)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~-----~----~~~~~~~~~~  167 (259)
                      +...+.+..++.+-.......        ......++..... ......-..+++.+...     +    ......+|..
T Consensus        80 ~lq~L~Elee~~~~~~~~~~~--------~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~  151 (352)
T PF02259_consen   80 KLQQLVELEEIIELKSNLSQN--------PQDLKSLLKRWRSRLPNMQDDFSVWEPILSLRRLVLSLILLPEELAETWLK  151 (352)
T ss_pred             HHhHHHHHHHHHHHHHhhccc--------HHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccchhHHHHHHHH
Confidence            444444444443332221111        1222222222211 11112222222222210     1    1223345666


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCC---cHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          168 TIHALCNDEQMDKAHDLFLDMEVKGVAP---NCVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       168 li~~~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      +...+.+.|+++.|...+..+...+..+   .+...-.-.+.+...|+..+|...+++..+.
T Consensus       152 ~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  152 FAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            6666667777777777776666532111   2233333445555666777777777666653

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.25  E-value=3.9  Score=33.41  Aligned_cols=139  Identities=19%  Similarity=0.187  Sum_probs=82.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcC---CC---------------
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG---LQ---------------   83 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~---------------   83 (259)
                      +|.-.-+..+...-.++-.+..+.  .|+-.+--.++ +--......++.+++++..+.|   ..               
T Consensus       174 IMq~AWRERnp~aRIkaA~eALei--~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkAgE~~lg~s~~~~~~g~~~e~~  250 (539)
T PF04184_consen  174 IMQKAWRERNPQARIKAAKEALEI--NPDCADAYILL-AEEEASTIVEAEELLRQAVKAGEASLGKSQFLQHHGHFWEAW  250 (539)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHh--hhhhhHHHhhc-ccccccCHHHHHHHHHHHHHHHHHhhchhhhhhcccchhhhh
Confidence            444444555565555565555543  34432222222 2223455677777777765432   00               


Q ss_pred             --Cc----hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 036731           84 --SD----VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG  157 (259)
Q Consensus        84 --~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  157 (259)
                        .+    ..+-..+..++-+.|+.++|.+.++++.+.....+     ...+...|+.++...+.+.++..++.+..+..
T Consensus       251 ~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~-----~l~IrenLie~LLelq~Yad~q~lL~kYdDi~  325 (539)
T PF04184_consen  251 HRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLD-----NLNIRENLIEALLELQAYADVQALLAKYDDIS  325 (539)
T ss_pred             hccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccc-----hhhHHHHHHHHHHhcCCHHHHHHHHHHhcccc
Confidence              01    11223356666778999999999999876532212     45688899999999999999999998875433


Q ss_pred             CCCCh--hhHHHHH
Q 036731          158 LMPNV--VTYNITI  169 (259)
Q Consensus       158 ~~~~~--~~~~~li  169 (259)
                      . |..  ..|+..+
T Consensus       326 l-pkSAti~YTaAL  338 (539)
T PF04184_consen  326 L-PKSATICYTAAL  338 (539)
T ss_pred             C-CchHHHHHHHHH
Confidence            2 233  3455544

The molecular function of this protein is uncertain.

>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=93.07  E-value=3  Score=31.61  Aligned_cols=198  Identities=12%  Similarity=0.085  Sum_probs=109.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhC--------CCCCc-----hHhHHHHHHHHhhcCChhH---HHHHHHHHHHcC
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDE--------NINPN-----VVTYNSLIHGFCYANDGNE---AEYLFIEMMDRG   81 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------~~~~~-----~~~~~~li~~~~~~~~~~~---a~~~~~~~~~~~   81 (259)
                      .||.-...+.+..+++.|..++++..+.        ...|+     ..+...++.+|...+..+.   |.++++.+....
T Consensus        38 ~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~  117 (278)
T PF08631_consen   38 CYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLESEY  117 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC
Confidence            3454444444443888888777765432        12222     3455667778877777554   556666665442


Q ss_pred             CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHH---HhcCChHHHHHHHHHHHHcCC
Q 036731           82 LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGL---CKIGKLKNARELSQSLTRAGL  158 (259)
Q Consensus        82 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~  158 (259)
                       .-.+.++..-+..+.+.++.+.+.+++.+|...-..++       ..+..++..+   .... ...|...+..+....+
T Consensus       118 -~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e-------~~~~~~l~~i~~l~~~~-~~~a~~~ld~~l~~r~  188 (278)
T PF08631_consen  118 -GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSE-------SNFDSILHHIKQLAEKS-PELAAFCLDYLLLNRF  188 (278)
T ss_pred             -CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhccccc-------chHHHHHHHHHHHHhhC-cHHHHHHHHHHHHHHh
Confidence             22355565667777778999999999999987643343       3455555554   3333 3456666666655444


Q ss_pred             CCChh-hHHHHH--HHHH--hcCC------hhHHHHHHHHHHhc-CCCCcHHHHHHH-------HHHHHhcCCHHHHHHH
Q 036731          159 MPNVV-TYNITI--HALC--NDEQ------MDKAHDLFLDMEVK-GVAPNCVIFTTL-------MPSFIRKNETSKVIEL  219 (259)
Q Consensus       159 ~~~~~-~~~~li--~~~~--~~~~------~~~a~~~~~~~~~~-~~~p~~~~~~~l-------~~~~~~~~~~~~a~~~  219 (259)
                      .|... ....++  ..+.  ..++      .+....++..+... +.+.+..+-.++       ...+.+.++++.|.++
T Consensus       189 ~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w  268 (278)
T PF08631_consen  189 KSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAASAIHTLLWNKGKKHYKAKNYDEAIEW  268 (278)
T ss_pred             CCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHH
Confidence            44443 111111  1111  2111      34444445533322 334444443332       2345578999999999


Q ss_pred             HHHHh
Q 036731          220 LRSMD  224 (259)
Q Consensus       220 ~~~~~  224 (259)
                      ++-..
T Consensus       269 ~~~al  273 (278)
T PF08631_consen  269 YELAL  273 (278)
T ss_pred             HHHHH
Confidence            88543

It is also involved in sporulation [].

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.03  E-value=0.17  Score=24.29  Aligned_cols=22  Identities=14%  Similarity=0.253  Sum_probs=13.1

Q ss_pred             chhhHHHHHHHHHHcCCHHHHH
Q 036731           85 DVVTFNVIMDELCKNRKMDEAT  106 (259)
Q Consensus        85 ~~~~~~~l~~~~~~~~~~~~a~  106 (259)
                      +...|+.+...|...|++++|+
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            4556666666666666666553

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.97  E-value=0.39  Score=22.72  Aligned_cols=27  Identities=15%  Similarity=0.250  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhh
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKD   44 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~   44 (259)
                      +|..+...+...|++++|+..|++..+
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            445555555555555555555555544

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 ....

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=92.71  E-value=0.021  Score=38.30  Aligned_cols=110  Identities=9%  Similarity=0.066  Sum_probs=71.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC
Q 036731          132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKN  211 (259)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  211 (259)
                      .++..+.+.+.++....+++.+...+...+....+.++..|++.++.+....+++..       +..-...++..|.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcc
Confidence            456777778888888888888887665556778888888888888778887777611       1133345677778888


Q ss_pred             CHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          212 ETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       212 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      .++++.-++.++....-         .+..+...++++.|++++.+
T Consensus        85 l~~~a~~Ly~~~~~~~~---------al~i~~~~~~~~~a~e~~~~  121 (143)
T PF00637_consen   85 LYEEAVYLYSKLGNHDE---------ALEILHKLKDYEEAIEYAKK  121 (143)
T ss_dssp             SHHHHHHHHHCCTTHTT---------CSSTSSSTHCSCCCTTTGGG
T ss_pred             hHHHHHHHHHHcccHHH---------HHHHHHHHccHHHHHHHHHh
Confidence            88888887766543211         11124455666666665554

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.

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.41  E-value=3.7  Score=31.01  Aligned_cols=57  Identities=4%  Similarity=-0.034  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCChhhHHHHHHHHHhcCChhHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRA-GLMPNVVTYNITIHALCNDEQMDKAHDL  184 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~  184 (259)
                      .+...++..++..++|.+-.++|+..... +..-|...|..+|......|+..-...+
T Consensus       203 ~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~ki  260 (292)
T PF13929_consen  203 NVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKI  260 (292)
T ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHH
Confidence            44445555555555555555555544333 3333444555555555555554433333

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.41  E-value=0.51  Score=22.18  Aligned_cols=27  Identities=15%  Similarity=0.188  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhh
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKD   44 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~   44 (259)
                      .|..+...+.+.|++++|.+.|++..+
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            344455555555555555555555543

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.41  E-value=0.6  Score=22.04  Aligned_cols=29  Identities=24%  Similarity=0.214  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      .+|..+..+|...|++++|+..|++..+.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            45666666667777777777777666553

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=92.28  E-value=5.2  Score=32.36  Aligned_cols=29  Identities=14%  Similarity=0.148  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhh
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKD   44 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   44 (259)
                      +.+|..++....+.++..+|.+.+.-+..
T Consensus       298 i~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~  326 (549)
T PF07079_consen  298 IDRFGNLLSFKVKQVQTEEAKQYLALLKI  326 (549)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Confidence            56788888999999999999888877654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=92.23  E-value=0.17  Score=24.31  Aligned_cols=22  Identities=14%  Similarity=0.117  Sum_probs=11.2

Q ss_pred             chHHHHHHHHHHHHhcccCCcc
Q 036731          231 YASILSIIVDLLVKNEISLNSI  252 (259)
Q Consensus       231 ~~~~~~~l~~~~~~~g~~~~a~  252 (259)
                      +...|..+...|...|++++|+
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            4445555555555555555443

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=92.22  E-value=0.64  Score=23.89  Aligned_cols=25  Identities=20%  Similarity=0.298  Sum_probs=14.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          203 LMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       203 l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      |..+|...|+.+.|.++++++...|
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC
Confidence            4455666666666666666665443

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.90  E-value=6.9  Score=32.94  Aligned_cols=26  Identities=27%  Similarity=0.152  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSL  153 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~  153 (259)
                      .-|..|.++....+++..|.+.|...
T Consensus       667 ~Kw~~Lg~~al~~~~l~lA~EC~~~a  692 (794)
T KOG0276|consen  667 VKWRQLGDAALSAGELPLASECFLRA  692 (794)
T ss_pred             HHHHHHHHHHhhcccchhHHHHHHhh
Confidence            44555555555555555555555443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=91.87  E-value=6.2  Score=32.35  Aligned_cols=59  Identities=19%  Similarity=0.144  Sum_probs=32.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 036731          132 CLIDGLCKIGKLKNARELSQSLTRAGLM-PNVVTYNITIHALCNDEQMDKAHDLFLDMEV  190 (259)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  190 (259)
                      .+..++-+.|+.++|.+.+++|.+.... -.......|+.++...+.+.++..++.+-.+
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            3444555566666666666666543211 1223455566666666666666666666543

The molecular function of this protein is uncertain.

>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=91.66  E-value=3.1  Score=28.43  Aligned_cols=16  Identities=31%  Similarity=0.354  Sum_probs=6.7

Q ss_pred             HHcCCHHHHHHHHHHH
Q 036731           97 CKNRKMDEATRLLDLM  112 (259)
Q Consensus        97 ~~~~~~~~a~~~~~~~  112 (259)
                      ...|++.+|..+|+.+
T Consensus        55 i~r~~w~dA~rlLr~l   70 (160)
T PF09613_consen   55 IVRGDWDDALRLLREL   70 (160)
T ss_pred             HHhCCHHHHHHHHHHH
Confidence            3344444444444443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.54  E-value=2.2  Score=26.55  Aligned_cols=46  Identities=11%  Similarity=0.106  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 036731           69 EAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQ  114 (259)
Q Consensus        69 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  114 (259)
                      +..+-++.+....+.|++....+.+++|.+.+++..|.++|+.++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4555566666666777777777777777777777777777777663

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 ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.54  E-value=0.8  Score=21.45  Aligned_cols=29  Identities=17%  Similarity=0.158  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      ..+..+..++...|++++|...|++..+.
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            34556666667777777777777666553

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 ....

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=91.43  E-value=4.8  Score=30.26  Aligned_cols=91  Identities=9%  Similarity=-0.012  Sum_probs=63.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHH--
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDEL--   96 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--   96 (259)
                      ...=|++++..+++.+++...-+-.+..-+.........|-.|.+.+.+..+.++-....+..-.-+...|..+...|  
T Consensus        86 cvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   86 CVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHH
Confidence            334579999999999999887666544222334455666777899999999999888777542222334466665555  


Q ss_pred             ---HHcCCHHHHHHHH
Q 036731           97 ---CKNRKMDEATRLL  109 (259)
Q Consensus        97 ---~~~~~~~~a~~~~  109 (259)
                         .-.|.+++|+++.
T Consensus       166 ~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHhccccHHHHHHHH
Confidence               4579999998887

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

>PRK11906 transcriptional regulator; Provisional

Probab=91.41  E-value=6.7  Score=31.85  Aligned_cols=144  Identities=13%  Similarity=0.064  Sum_probs=81.5

Q ss_pred             hhHHHHHHHHHHH-cCCCCc-hhhHHHHHHHHHH---------cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHH
Q 036731           67 GNEAEYLFIEMMD-RGLQSD-VVTFNVIMDELCK---------NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLID  135 (259)
Q Consensus        67 ~~~a~~~~~~~~~-~~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  135 (259)
                      .+.|+.+|.+... +...|+ ...|..+..++..         ..+..+|.+.-++..+.+.  +     |......+..
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~--~-----Da~a~~~~g~  346 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITT--V-----DGKILAIMGL  346 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCC--C-----CHHHHHHHHH
Confidence            4567777777772 223444 3333333333221         2234456666666655432  2     5567777777


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcH---HHHHHHHHHHHhcC
Q 036731          136 GLCKIGKLKNARELSQSLTRAGLMPN-VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNC---VIFTTLMPSFIRKN  211 (259)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~~  211 (259)
                      +....++++.|...|++....+  || ..+|....-.+.-.|+.++|.+.+++..+.  .|..   ......++.|.. .
T Consensus       347 ~~~~~~~~~~a~~~f~rA~~L~--Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~~~~~~~~~~~~~~-~  421 (458)
T PRK11906        347 ITGLSGQAKVSHILFEQAKIHS--TDIASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRKAVVIKECVDMYVP-N  421 (458)
T ss_pred             HHHhhcchhhHHHHHHHHhhcC--CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhHHHHHHHHHHHHcC-C
Confidence            7777777888888888877753  33 345555555556678888888888876554  3332   223333334444 4


Q ss_pred             CHHHHHHHHHH
Q 036731          212 ETSKVIELLRS  222 (259)
Q Consensus       212 ~~~~a~~~~~~  222 (259)
                      ..+.|.+++-+
T Consensus       422 ~~~~~~~~~~~  432 (458)
T PRK11906        422 PLKNNIKLYYK  432 (458)
T ss_pred             chhhhHHHHhh
Confidence            55666666643

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=91.40  E-value=7.2  Score=32.17  Aligned_cols=167  Identities=13%  Similarity=0.105  Sum_probs=110.7

Q ss_pred             CCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhH
Q 036731           48 NPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINI  127 (259)
Q Consensus        48 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  127 (259)
                      +.|.....+++..+.......-+..+..+|..-|  -+...+-.++.+|... ..+.-..+|+++.+..+.       |+
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-------Dv  132 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-------DV  132 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-------hH
Confidence            4456666777777888888888888888888764  3567788888888888 557788888888876654       33


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-----CChhhHHHHHHHHHhcCChhHHHHHHHHHHhc-CCCCcHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLM-----PNVVTYNITIHALCNDEQMDKAHDLFLDMEVK-GVAPNCVIFT  201 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~  201 (259)
                      ..-..|...|-+ ++.+.+...|.+....=++     .-...|..+...  -..+.+..+.+..++... |...-...+.
T Consensus       133 v~~ReLa~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~q  209 (711)
T COG1747         133 VIGRELADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQ  209 (711)
T ss_pred             HHHHHHHHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHH
Confidence            444444444444 7888888888777654211     012245555442  234566777776666543 4444455666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          202 TLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       202 ~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      -+...|....++.+|.+++..+.+.+
T Consensus       210 dv~~~Ys~~eN~~eai~Ilk~il~~d  235 (711)
T COG1747         210 DVYKKYSENENWTEAIRILKHILEHD  235 (711)
T ss_pred             HHHHHhccccCHHHHHHHHHHHhhhc
Confidence            66677888888888888888776543

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=91.38  E-value=3.4  Score=29.89  Aligned_cols=77  Identities=14%  Similarity=0.121  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc--CCCCcHHHHHHHHHH
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK--GVAPNCVIFTTLMPS  206 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~p~~~~~~~l~~~  206 (259)
                      +.+.-++.+.+.+.+++++...++-.+... .|..+-..+++.++-.|++++|..-++-.-..  ...+-..+|..++.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakP-tda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKP-TDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCC-ccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            344556667777888888888877776642 25556677788888888888888776655443  123334555555554

>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.02  E-value=6.8  Score=31.19  Aligned_cols=179  Identities=12%  Similarity=0.113  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhC--CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc---------CCCCc
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDE--NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR---------GLQSD   85 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---------~~~~~   85 (259)
                      ..+.-+...|..+|+++.|++.|.+.+.-  ..+-....|-.+|....-.|+|..+..+..+....         .+.+-
T Consensus       151 ra~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~v~~k  230 (466)
T KOG0686|consen  151 RALEDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLAQEVPAK  230 (466)
T ss_pred             HHHHHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHHHhcCcc
Confidence            45677888999999999999999886643  12334566777788888889998888887776654         12222


Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHH-hCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHH-----HHHHHHcCCC
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMI-QGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNAREL-----SQSLTRAGLM  159 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-----~~~~~~~~~~  159 (259)
                      ...+..+...+.+  ++..|.+.|-... .....|....+.|+.+|. .+.+.+-.++-+.-..+     |+.+.+.   
T Consensus       231 l~C~agLa~L~lk--kyk~aa~~fL~~~~~~~d~~~ivtpsdv~iYg-gLcALAtfdr~~Lk~~vi~n~~Fk~flel---  304 (466)
T KOG0686|consen  231 LKCAAGLANLLLK--KYKSAAKYFLLAEFDHCDYPEIVTPSDVAIYG-GLCALATFDRQDLKLNVIKNESFKLFLEL---  304 (466)
T ss_pred             hHHHHHHHHHHHH--HHHHHHHHHHhCCCCccCccceecchhhHHHH-hhHhhccCCHHHHHHHHHcchhhhhHHhc---
Confidence            3333334433333  6666665553332 111111111122444443 33333333333222222     2333332   


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHhc-----CCCCcHHHHHHHH
Q 036731          160 PNVVTYNITIHALCNDEQMDKAHDLFLDMEVK-----GVAPNCVIFTTLM  204 (259)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~p~~~~~~~l~  204 (259)
                       .+..+..+..-|  .+++..+++++++++..     -+.|++.+.-.+|
T Consensus       305 -~Pqlr~il~~fy--~sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~I  351 (466)
T KOG0686|consen  305 -EPQLREILFKFY--SSKYASCLELLREIKPRLLLDMYLAPHVDNLYSLI  351 (466)
T ss_pred             -ChHHHHHHHHHh--hhhHHHHHHHHHHhccceeechhcchhHHHHHHHH
Confidence             233333333333  35788899999888654     2455555554444

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.60  E-value=4.8  Score=28.76  Aligned_cols=99  Identities=18%  Similarity=0.157  Sum_probs=68.9

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC  173 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (259)
                      .-+...|++++|..-|......  .|..+...-...|..-..++.+.+.++.|+.--....+.+.. .......-..+|.
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~--cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeaye  179 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALES--CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYE  179 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHh--CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHH
Confidence            3466789999999999888764  233222334567777778888899999888877777765422 2223333355788


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCcH
Q 036731          174 NDEQMDKAHDLFLDMEVKGVAPNC  197 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~p~~  197 (259)
                      +...++.|+.=|+++.+.  .|..
T Consensus       180 k~ek~eealeDyKki~E~--dPs~  201 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILES--DPSR  201 (271)
T ss_pred             hhhhHHHHHHHHHHHHHh--Ccch
Confidence            888999999999999877  4543

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=90.58  E-value=5  Score=29.08  Aligned_cols=77  Identities=13%  Similarity=0.047  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc--CCCCchhhHHHHHHH
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR--GLQSDVVTFNVIMDE   95 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~   95 (259)
                      |.+..++.+.+.++..+++...++-.+.+ +.|...-..++..++-.|++++|..-++-.-..  ...+...+|..++.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            45666778888889999998887776663 445666778888999999999998777655443  233445566666654

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=90.34  E-value=6.4  Score=29.81  Aligned_cols=132  Identities=13%  Similarity=0.103  Sum_probs=84.9

Q ss_pred             hHHHHHHHHHHhh-CCCCCchHhHHHHHHHHhh-cC-ChhHHHHHHHHHHH-cCCCCchhhHHHHHHHHHHcCCHHHHHH
Q 036731           32 VDKAKELFLQMKD-ENINPNVVTYNSLIHGFCY-AN-DGNEAEYLFIEMMD-RGLQSDVVTFNVIMDELCKNRKMDEATR  107 (259)
Q Consensus        32 ~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~-~~-~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~  107 (259)
                      +.+|+++|+..-- ..+--|..+...+++.... .+ ....-.++.+-+.. .|-.++..+...++..++..+++.+-.+
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            3455566652211 2244567777777777665 22 23333344444432 2456778888899999999999999999


Q ss_pred             HHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHH-----HHHcCCCCChhhHHHH
Q 036731          108 LLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQS-----LTRAGLMPNVVTYNIT  168 (259)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~l  168 (259)
                      +++..... ..|..    |.+.|..+|......|+..-...+..+     +++.++..+...-..+
T Consensus       224 fW~~~~~~-~~~~~----D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L  284 (292)
T PF13929_consen  224 FWEQCIPN-SVPGN----DPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQL  284 (292)
T ss_pred             HHHHhccc-CCCCC----CCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHH
Confidence            99877644 12322    669999999999999999877777654     2344555444443333

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=90.31  E-value=3.6  Score=26.80  Aligned_cols=37  Identities=11%  Similarity=0.238  Sum_probs=17.7

Q ss_pred             HHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 036731          188 MEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMD  224 (259)
Q Consensus       188 ~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (259)
                      +...++-|++.+...-+++|.+.+++..|.++|+-+.
T Consensus        75 l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK  111 (149)
T KOG4077|consen   75 LFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIK  111 (149)
T ss_pred             hhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3333444455555555555555555555555444443

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=90.30  E-value=0.79  Score=21.25  Aligned_cols=25  Identities=28%  Similarity=0.288  Sum_probs=14.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          132 CLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      .+..++.+.|++++|...|+++.+.
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHH
Confidence            3445555556666666666665543

>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=90.16  E-value=1.2  Score=20.94  Aligned_cols=28  Identities=21%  Similarity=0.112  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTR  155 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~  155 (259)
                      .+|..+...|...|++++|...|++..+
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3566677777777777777777776655

...

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=90.07  E-value=5.5  Score=32.51  Aligned_cols=90  Identities=10%  Similarity=-0.029  Sum_probs=45.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 036731          134 IDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNET  213 (259)
Q Consensus       134 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  213 (259)
                      ...+...|+++.+.+.+....+. +.....+...+++...+.|+++.|..+-.-|....+. +++......-..-..|-+
T Consensus       330 ~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~  407 (831)
T PRK15180        330 SVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLF  407 (831)
T ss_pred             HHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHH
Confidence            33445556666666655554432 2223445556666666666666666666666554433 223322222233344555


Q ss_pred             HHHHHHHHHHhh
Q 036731          214 SKVIELLRSMDK  225 (259)
Q Consensus       214 ~~a~~~~~~~~~  225 (259)
                      +++...|+++..
T Consensus       408 d~~~~~wk~~~~  419 (831)
T PRK15180        408 DKSYHYWKRVLL  419 (831)
T ss_pred             HHHHHHHHHHhc
Confidence            666666655543

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=90.04  E-value=4.3  Score=27.34  Aligned_cols=53  Identities=13%  Similarity=0.138  Sum_probs=39.4

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCChh---hHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 036731          136 GLCKIGKLKNARELSQSLTRAGLMPNVV---TYNITIHALCNDEQMDKAHDLFLDMEVKG  192 (259)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~~~~~~  192 (259)
                      .-...++.+++..++..|.-.  .|...   ++...  .+...|++++|..+|+++.+.+
T Consensus        19 ~aL~~~d~~D~e~lLdALrvL--rP~~~e~d~~dg~--l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        19 YALRSADPYDAQAMLDALRVL--RPNLKELDMFDGW--LLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HHHhcCCHHHHHHHHHHHHHh--CCCccccchhHHH--HHHHcCCHHHHHHHHHhhhccC
Confidence            334588999999999998764  34433   33333  4578899999999999998874

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PHA02875 ankyrin repeat protein; Provisional

Probab=89.98  E-value=3.5  Score=33.22  Aligned_cols=129  Identities=19%  Similarity=0.111  Sum_probs=56.9

Q ss_pred             ccccccccCCHHH--HHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchH--hHHHHHHHHhhcCChhHHHHHHHHHHHcC
Q 036731            6 REFGVVCKPNTVT--YNTIIDGLCKEGFVDKAKELFLQMKDENINPNVV--TYNSLIHGFCYANDGNEAEYLFIEMMDRG   81 (259)
Q Consensus         6 ~~~~~~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~~~~~~   81 (259)
                      .+++.|..|+...  ..+.+...++.|+.+-+    +.+.+.|..|+..  .....+...+..|+.+.+..+++    .|
T Consensus        20 ~Ll~~g~~~n~~~~~g~tpL~~A~~~~~~~~v----~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~----~~   91 (413)
T PHA02875         20 RLLDIGINPNFEIYDGISPIKLAMKFRDSEAI----KLLMKHGAIPDVKYPDIESELHDAVEEGDVKAVEELLD----LG   91 (413)
T ss_pred             HHHHCCCCCCccCCCCCCHHHHHHHcCCHHHH----HHHHhCCCCccccCCCcccHHHHHHHCCCHHHHHHHHH----cC
Confidence            3445555554422  23445555667776533    3344445444322  11233445556677766555443    33


Q ss_pred             CCCch---hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHH
Q 036731           82 LQSDV---VTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELS  150 (259)
Q Consensus        82 ~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  150 (259)
                      ...+.   ..-.+.+...+..|+.+    +++.+.+.|..++..   +..- .+.+...+..|+.+.+..++
T Consensus        92 ~~~~~~~~~~g~tpL~~A~~~~~~~----iv~~Ll~~gad~~~~---~~~g-~tpLh~A~~~~~~~~v~~Ll  155 (413)
T PHA02875         92 KFADDVFYKDGMTPLHLATILKKLD----IMKLLIARGADPDIP---NTDK-FSPLHLAVMMGDIKGIELLI  155 (413)
T ss_pred             CcccccccCCCCCHHHHHHHhCCHH----HHHHHHhCCCCCCCC---CCCC-CCHHHHHHHcCCHHHHHHHH
Confidence            21111   01122334444556543    444445555554321   1111 22334445566665444433

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=89.86  E-value=0.66  Score=20.54  Aligned_cols=23  Identities=26%  Similarity=0.192  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHH
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQ  151 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~  151 (259)
                      ....+...+...|++++|..+++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHh
Confidence            34455666666666666666654

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.85  E-value=6.3  Score=28.93  Aligned_cols=20  Identities=15%  Similarity=0.275  Sum_probs=12.3

Q ss_pred             HHhcCCHHHHHHHHHHHhhC
Q 036731          207 FIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       207 ~~~~~~~~~a~~~~~~~~~~  226 (259)
                      -+..+++.+|.++|++....
T Consensus       164 aa~leqY~~Ai~iyeqva~~  183 (288)
T KOG1586|consen  164 AAQLEQYSKAIDIYEQVARS  183 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34556667777777666543

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=89.78  E-value=11  Score=31.84  Aligned_cols=178  Identities=11%  Similarity=0.022  Sum_probs=104.9

Q ss_pred             hHHHHHHHHHHhhCCCCCchHhHHHHH--HH-HhhcCChhHHHHHHHHHHH-------cCCCCchhhHHHHHHHHHHcC-
Q 036731           32 VDKAKELFLQMKDENINPNVVTYNSLI--HG-FCYANDGNEAEYLFIEMMD-------RGLQSDVVTFNVIMDELCKNR-  100 (259)
Q Consensus        32 ~~~a~~~~~~~~~~~~~~~~~~~~~li--~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~-  100 (259)
                      ...|.++++...+.|.. .......++  .+ +....+.+.|+.+++...+       .|   ......-+..+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~g~~-~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS-EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhcch-HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            45788888888777532 111111122  22 4466789999999998876       44   3335566777777643 


Q ss_pred             ----CHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhc---CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 036731          101 ----KMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKI---GKLKNARELSQSLTRAGLMPNVVTYNITIHALC  173 (259)
Q Consensus       101 ----~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (259)
                          +.+.|..++...-..|..         .....+...+...   .+...|.++|....+.|..   ..+-.+..+|.
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g~~---------~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~---~A~~~la~~y~  371 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELGNP---------DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI---LAIYRLALCYE  371 (552)
T ss_pred             CccccHHHHHHHHHHHHhcCCc---------hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh---HHHHHHHHHHH
Confidence                567799999888877654         2333333333332   4578999999999888753   22222222222


Q ss_pred             ----hcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          174 ----NDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       174 ----~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                          ...+...|..++++..+.| .|...--...+..+.. ++++.+.-.+..+.+.+
T Consensus       372 ~G~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  372 LGLGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             hCCCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence                2346788999999988887 3332222222333333 56655555555554443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=89.44  E-value=7.8  Score=29.46  Aligned_cols=178  Identities=11%  Similarity=0.055  Sum_probs=108.0

Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHH------cCC-----HHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh
Q 036731           71 EYLFIEMMDRGLQSDVVTFNVIMDELCK------NRK-----MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK  139 (259)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~------~~~-----~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  139 (259)
                      -+..++..+.-......++...+.++..      .|.     -.+|+++|.-+.++.-++        .+-+.++..+-.
T Consensus       107 nraIdr~~k~ve~~~eee~~~~iscfgg~ev~~rqg~~vkWis~KA~ELFayLv~hkgk~--------v~~~~~ie~lwp  178 (361)
T COG3947         107 NRAIDRRLKRVELTAEEESGTQISCFGGTEVVLRQGQQVKWISRKALELFAYLVEHKGKE--------VTSWEAIEALWP  178 (361)
T ss_pred             HHHHHHHhccccccchhccCeeeEeccceeeeccCCceeeehhhHHHHHHHHHHHhcCCc--------ccHhHHHHHHcc
Confidence            3333444333223345566666666651      221     368999999888765443        556667777777


Q ss_pred             cCChHHHHHHHHHH-------HH-------------------cCCCCChhhHHHHHHHHHhc-CChhHHHHHHHHHHhcC
Q 036731          140 IGKLKNARELSQSL-------TR-------------------AGLMPNVVTYNITIHALCND-EQMDKAHDLFLDMEVKG  192 (259)
Q Consensus       140 ~~~~~~a~~~~~~~-------~~-------------------~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~~  192 (259)
                      ..+..+|...+...       ..                   .++.-|..-|...++..... -.++++.++....... 
T Consensus       179 e~D~kka~s~lhTtvyqlRKaLs~L~~ne~vts~d~~Ykld~~~~k~Dv~e~es~~rqi~~inltide~kelv~~ykgd-  257 (361)
T COG3947         179 EKDEKKASSLLHTTVYQLRKALSRLNANEAVTSQDRKYKLDAGLPKYDVQEYESLARQIEAINLTIDELKELVGQYKGD-  257 (361)
T ss_pred             ccchhhHHHHHHHHHHHHHHHhchhccCceEEEcCCceEEecCCccccHHHHHHHhhhhhccccCHHHHHHHHHHhcCC-
Confidence            77777776655432       11                   02233444455555443332 2355555555544321 


Q ss_pred             CCC--------c-----HH----HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhh
Q 036731          193 VAP--------N-----CV----IFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQF  255 (259)
Q Consensus       193 ~~p--------~-----~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  255 (259)
                      .-|        |     ..    ++....+.|..+|.+.+|.++.++.+..+ +.+...+-.++..+...|+--.|.+-|
T Consensus       258 yl~e~~y~Waedererle~ly~kllgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khy  336 (361)
T COG3947         258 YLPEADYPWAEDERERLEQLYMKLLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHY  336 (361)
T ss_pred             cCCccccccccchHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHH
Confidence            111        1     12    33344567889999999999999998764 457788888999999999988888777


Q ss_pred             hcc
Q 036731          256 NRQ  258 (259)
Q Consensus       256 ~~~  258 (259)
                      +++
T Consensus       337 ery  339 (361)
T COG3947         337 ERY  339 (361)
T ss_pred             HHH
Confidence            765

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=89.24  E-value=11  Score=31.09  Aligned_cols=184  Identities=9%  Similarity=0.050  Sum_probs=127.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      |....-+++..+..+-+..-++.+..+|...|  .+-..|..++.+|... ..+.-..+|+++.+..+. |.+.-..|..
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 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHH
Confidence            56667788999999999999999999999874  4778899999999888 778889999999987554 4554455555


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCChhhHHHHHHHHH
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA-GLMPNVVTYNITIHALC  173 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~  173 (259)
                      .|-+ ++.+.+...|..+...-+.... ...-..+|.-+...-  ..+.+..+.+...+... |...-...+.-+-.-|.
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~yrfI~~~q-~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALYRFIPRRQ-NAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHHhcchhh-hhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            5555 8888888888887654332110 000113454444322  34677777777777653 43334556666667788


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          174 NDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      ...++++|++++..+.+.+ ..|.-.-..++..+
T Consensus       217 ~~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~~l  249 (711)
T COG1747         217 ENENWTEAIRILKHILEHD-EKDVWARKEIIENL  249 (711)
T ss_pred             cccCHHHHHHHHHHHhhhc-chhhhHHHHHHHHH
Confidence            8999999999999888774 33555555555544

>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=88.94  E-value=1.5  Score=20.54  Aligned_cols=27  Identities=7%  Similarity=0.103  Sum_probs=20.6

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 036731           88 TFNVIMDELCKNRKMDEATRLLDLMIQ  114 (259)
Q Consensus        88 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  114 (259)
                      +|..+...|...|++++|...|++..+
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            566677778888888888888877664

...

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.94  E-value=1.4  Score=22.71  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=14.5

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhC
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDE   45 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~   45 (259)
                      +..+|...|+.+.|.+++++....
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Confidence            455666666666666666666543

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.85  E-value=11  Score=31.88  Aligned_cols=79  Identities=19%  Similarity=0.164  Sum_probs=50.4

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHH
Q 036731           88 TFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNI  167 (259)
Q Consensus        88 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  167 (259)
                      .-+.+...+.+.|..++|+++-       ..|+       .    -.....+.|+++.|.++..+..      +..-|..
T Consensus       616 ~rt~va~Fle~~g~~e~AL~~s-------~D~d-------~----rFelal~lgrl~iA~~la~e~~------s~~Kw~~  671 (794)
T KOG0276|consen  616 IRTKVAHFLESQGMKEQALELS-------TDPD-------Q----RFELALKLGRLDIAFDLAVEAN------SEVKWRQ  671 (794)
T ss_pred             hhhhHHhHhhhccchHhhhhcC-------CChh-------h----hhhhhhhcCcHHHHHHHHHhhc------chHHHHH
Confidence            4455666677777777775542       1221       1    1234456788888887766543      4556788


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHh
Q 036731          168 TIHALCNDEQMDKAHDLFLDMEV  190 (259)
Q Consensus       168 li~~~~~~~~~~~a~~~~~~~~~  190 (259)
                      |..+....+++..|.+.|.+..+
T Consensus       672 Lg~~al~~~~l~lA~EC~~~a~d  694 (794)
T KOG0276|consen  672 LGDAALSAGELPLASECFLRARD  694 (794)
T ss_pred             HHHHHhhcccchhHHHHHHhhcc
Confidence            88888888888888777766543

>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=88.76  E-value=2.1  Score=25.16  Aligned_cols=53  Identities=11%  Similarity=0.173  Sum_probs=36.3

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHH
Q 036731           93 MDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELS  150 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  150 (259)
                      +..| ...+.++|+..|....+.-..+..    --.++..++.+|+..|++.+++.+-
T Consensus        14 lkLY-~~~~~~~Al~~W~~aL~k~~~~~~----rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   14 LKLY-HQNETQQALQKWRKALEKITDRED----RFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             HHHh-ccchHHHHHHHHHHHHhhcCChHH----HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3434 566778888888888765444321    3367777888888888888777654

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

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=88.65  E-value=8.7  Score=28.99  Aligned_cols=93  Identities=8%  Similarity=-0.016  Sum_probs=63.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      ..+..=|.+++..++|.+++...-+.-..--+.........|-.|.+.+++..+.++-.......-.-+...|..+++.|
T Consensus        84 sLcvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELy  163 (309)
T PF07163_consen   84 SLCVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELY  163 (309)
T ss_pred             hhhhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHH
Confidence            45556688899999999988766554433222344566777778889999998888887777652223334477666655


Q ss_pred             Hh-----cCCHHHHHHHH
Q 036731          208 IR-----KNETSKVIELL  220 (259)
Q Consensus       208 ~~-----~~~~~~a~~~~  220 (259)
                      ..     .|.+++|.++.
T Consensus       164 Ll~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  164 LLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHHHhccccHHHHHHHH
Confidence            54     58888888877

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

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=88.35  E-value=11  Score=29.58  Aligned_cols=168  Identities=10%  Similarity=0.047  Sum_probs=92.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCC---C-CCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDEN---I-NPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFN   90 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   90 (259)
                      +...|.++...  +.++++++...++.+...-   . ......|........+...+.+..++.+-.....  .+.....
T Consensus        30 ~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~~lq~L~Elee~~~~~~~~~--~~~~~~~  105 (352)
T PF02259_consen   30 EYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLVKLQQLVELEEIIELKSNLS--QNPQDLK  105 (352)
T ss_pred             hHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhHHHHHHHHHHHHHhhc--ccHHHHH
Confidence            44455555444  8899999999988876541   0 1122334444444444444444444443332221  1122223


Q ss_pred             HHHHHHHH-----cCCHHHHHHHH---HHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--
Q 036731           91 VIMDELCK-----NRKMDEATRLL---DLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP--  160 (259)
Q Consensus        91 ~l~~~~~~-----~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--  160 (259)
                      .++.....     ..+++.-..++   ..+...-..+.    ....+|..++..+.+.|.++.|...+..+...+...  
T Consensus       106 ~l~~~W~~Rl~~~~~~~~~~~~il~~R~~~l~~~~~~~----~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~  181 (352)
T PF02259_consen  106 SLLKRWRSRLPNMQDDFSVWEPILSLRRLVLSLILLPE----ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSES  181 (352)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccchh----HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccC
Confidence            33332221     22222222222   22222111122    256789999999999999999999999988754221  


Q ss_pred             -ChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 036731          161 -NVVTYNITIHALCNDEQMDKAHDLFLDMEV  190 (259)
Q Consensus       161 -~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  190 (259)
                       ++...-.-....-..|+..+|...++....
T Consensus       182 ~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  182 LLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             CCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             334444456666778888999998888776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.27  E-value=6.8  Score=27.30  Aligned_cols=139  Identities=15%  Similarity=0.098  Sum_probs=87.2

Q ss_pred             hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchh-hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHH
Q 036731           51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVV-TFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVA  129 (259)
Q Consensus        51 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  129 (259)
                      ...|..-+. ..+.+..++|+.-|.++.+.|...-+. ...-........|+-..|...|+++-.....|..     ..-
T Consensus        59 gd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~-----~rd  132 (221)
T COG4649          59 GDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQI-----GRD  132 (221)
T ss_pred             hHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcch-----hhH
Confidence            334444443 356678888999999888876542221 1122334466788889999999988765544432     111


Q ss_pred             HHHHH--HHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 036731          130 YGCLI--DGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAP  195 (259)
Q Consensus       130 ~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  195 (259)
                      ...|=  -.+...|.++......+.+...+-+.-...-..|.-+-.+.|++..|..+|..+....-.|
T Consensus       133 ~ARlraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         133 LARLRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            22222  2345677888888877777655433334444566666778999999999998887653333

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=88.21  E-value=18  Score=32.05  Aligned_cols=205  Identities=12%  Similarity=0.070  Sum_probs=109.7

Q ss_pred             HHHHHHH-HHHhcCChHHHHHHHHHHhhC----CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHH-
Q 036731           18 TYNTIID-GLCKEGFVDKAKELFLQMKDE----NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNV-   91 (259)
Q Consensus        18 ~~~~ll~-~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-   91 (259)
                      .|+.+-. .....|+++.|.++-+.....    -..+....+..+..+..-.|++++|..+..+..+..-..+...+.. 
T Consensus       459 e~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~  538 (894)
T COG2909         459 EFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAAHIRGELTQALALMQQAEQMARQHDVYHLALW  538 (894)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHH
Confidence            3444432 234578899999988887654    1223455566667777888999999998887765433334433332 


Q ss_pred             --HH--HHHHHcCCH--HHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCChhh
Q 036731           92 --IM--DELCKNRKM--DEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG-KLKNARELSQSLTRAGLMPNVVT  164 (259)
Q Consensus        92 --l~--~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~  164 (259)
                        +.  ..+...|+.  .+.+..|...........+...+-..++..++.++.+.. ...++..-++........|-...
T Consensus       539 ~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~  618 (894)
T COG2909         539 SLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSR  618 (894)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHHHHHHHHHhhhhHHhhhcchhhhhcccchhHHH
Confidence              22  335556633  333334443332211111101123355666666666522 12222222222222222222222


Q ss_pred             --HHHHHHHHHhcCChhHHHHHHHHHHhcCCCC----cHHHHHHHH--HHHHhcCCHHHHHHHHHH
Q 036731          165 --YNITIHALCNDEQMDKAHDLFLDMEVKGVAP----NCVIFTTLM--PSFIRKNETSKVIELLRS  222 (259)
Q Consensus       165 --~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p----~~~~~~~l~--~~~~~~~~~~~a~~~~~~  222 (259)
                        +..++......|+.++|...+.++......+    +..+-...+  ......|+...+...+.+
T Consensus       619 ~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         619 LALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKVKLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHhhHHHhcccCCHHHHHHHHHh
Confidence              2367788888999999999999887653222    222222222  233457888887777765

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=88.07  E-value=15  Score=31.68  Aligned_cols=41  Identities=12%  Similarity=0.159  Sum_probs=18.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhh
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCY   63 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~   63 (259)
                      +|-.|.|+|++++|.++..+.... .......+...+..|..
T Consensus       117 ~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~  157 (613)
T PF04097_consen  117 LIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYAS  157 (613)
T ss_dssp             HHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTT
T ss_pred             HHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHh
Confidence            444455555555555555433322 23334444555555544

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.

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=87.91  E-value=5.2  Score=27.96  Aligned_cols=26  Identities=19%  Similarity=0.275  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          180 KAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       180 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      +|...|++..+.  .|+..+|+.-+...
T Consensus        98 kA~~~FqkAv~~--~P~ne~Y~ksLe~~  123 (186)
T PF06552_consen   98 KATEYFQKAVDE--DPNNELYRKSLEMA  123 (186)
T ss_dssp             HHHHHHHHHHHH---TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHhc--CCCcHHHHHHHHHH
Confidence            333333333333  45555555555443

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=87.70  E-value=10  Score=28.58  Aligned_cols=204  Identities=10%  Similarity=0.078  Sum_probs=114.6

Q ss_pred             CCCCCchHhHHHHHHHH-hhcCChhHHHHHHHHHHHcCCCCchh---hHHHHHHHHHHcCCHHHHHHHHHHHHh---CCC
Q 036731           45 ENINPNVVTYNSLIHGF-CYANDGNEAEYLFIEMMDRGLQSDVV---TFNVIMDELCKNRKMDEATRLLDLMIQ---GGV  117 (259)
Q Consensus        45 ~~~~~~~~~~~~li~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~  117 (259)
                      ++..||+..-|..-.+- .+..++++|+.-|++..+........   ....++....+.+++++....+.++..   ..+
T Consensus        20 s~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAV   99 (440)
T KOG1464|consen   20 SNSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAV   99 (440)
T ss_pred             cCCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHH
Confidence            35566666555443322 23346777888887776543222333   334467778888888888777777642   222


Q ss_pred             CCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHH----HcC-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 036731          118 RPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLT----RAG-LMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG  192 (259)
Q Consensus       118 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  192 (259)
                      ..+.    +....|++++......+.+.-..+++.-.    +.. -+.=-.|-+.+...|...+++.+...+++++....
T Consensus       100 TrNy----SEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SC  175 (440)
T KOG1464|consen  100 TRNY----SEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSC  175 (440)
T ss_pred             hccc----cHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHh
Confidence            2221    34667777777776666655555544322    211 00001133556677788888888888888876431


Q ss_pred             C----C-------CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCccchHHHHHHHHH----HHHhcccCCcc
Q 036731          193 V----A-------PNCVIFTTLMPSFIRKNETSKVIELLRSMDKR-NVMPYASILSIIVDL----LVKNEISLNSI  252 (259)
Q Consensus       193 ~----~-------p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~----~~~~g~~~~a~  252 (259)
                      -    .       .-...|..=|..|....+-.....++++.+.. .-.|.+.....+-.+    ..+.|++++|-
T Consensus       176 q~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~Ah  251 (440)
T KOG1464|consen  176 QTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAH  251 (440)
T ss_pred             ccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHH
Confidence            0    1       11345666677787777777778888776532 224444444433221    24456665553

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=87.63  E-value=2.3  Score=25.02  Aligned_cols=44  Identities=7%  Similarity=-0.127  Sum_probs=18.2

Q ss_pred             cCChHHHHHHHHHHHHcCCCCC--hhhHHHHHHHHHhcCChhHHHH
Q 036731          140 IGKLKNARELSQSLTRAGLMPN--VVTYNITIHALCNDEQMDKAHD  183 (259)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~  183 (259)
                      ..+.++|+..|+...+.-..+.  -.++..++.+++..|++.+++.
T Consensus        19 ~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~   64 (80)
T PF10579_consen   19 QNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLA   64 (80)
T ss_pred             cchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344455555554443321111  1134444444444454444443

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

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=87.50  E-value=4.4  Score=27.29  Aligned_cols=64  Identities=8%  Similarity=0.051  Sum_probs=36.6

Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhccc
Q 036731          184 LFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEIS  248 (259)
Q Consensus       184 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  248 (259)
                      +...+.+.|++++..= ..+++.+...++.-.|.++++++.+.+...+..|....++.+...|-.
T Consensus         8 ~~~~lk~~glr~T~qR-~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv   71 (145)
T COG0735           8 AIERLKEAGLRLTPQR-LAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGLV   71 (145)
T ss_pred             HHHHHHHcCCCcCHHH-HHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCE
Confidence            3344455565554432 244555555555566677777766666555566666666666666644

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=87.40  E-value=6.1  Score=25.78  Aligned_cols=59  Identities=12%  Similarity=0.147  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHH
Q 036731          145 NARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLM  204 (259)
Q Consensus       145 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  204 (259)
                      +..+.++.+...++.|++.....-+++|.+.+++..|..+|+-++.. +.+....|..++
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v  125 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYV  125 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHH
Confidence            45666777777888999999999999999999999999999998866 233334455544

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=87.37  E-value=6.3  Score=26.54  Aligned_cols=64  Identities=17%  Similarity=0.141  Sum_probs=42.4

Q ss_pred             HHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 036731          107 RLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQ  177 (259)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (259)
                      ++...+.+.|.+++       .--..++..+...++.-.|.++++++.+.+...+..|.-.-+..+...|-
T Consensus         7 ~~~~~lk~~glr~T-------~qR~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Gl   70 (145)
T COG0735           7 DAIERLKEAGLRLT-------PQRLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGL   70 (145)
T ss_pred             HHHHHHHHcCCCcC-------HHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCC
Confidence            34455667777765       35556777777777778888888888887666655555555555555553

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.08  E-value=10  Score=28.08  Aligned_cols=193  Identities=13%  Similarity=0.042  Sum_probs=102.7

Q ss_pred             HhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhh------HHHHHHHHHHcCCHHHHHHHHHHHH----hCCCCCCC
Q 036731           52 VTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVT------FNVIMDELCKNRKMDEATRLLDLMI----QGGVRPDA  121 (259)
Q Consensus        52 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~  121 (259)
                      ..|..-..+|....++++|...+.+..+- .+.+...      |...+...-....+.++..++++..    +.| .|++
T Consensus        32 s~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~G-spdt  109 (308)
T KOG1585|consen   32 SLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECG-SPDT  109 (308)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhC-Ccch
Confidence            44555566777788888888777666532 2222222      2223333334445556666665543    222 2321


Q ss_pred             ccchhHHHHHHHHHH--HHhcCChHHHHHHHHHHHHc---CCC--CChhhHHHHHHHHHhcCChhHHHHHHHHHHh----
Q 036731          122 FCEINIVAYGCLIDG--LCKIGKLKNARELSQSLTRA---GLM--PNVVTYNITIHALCNDEQMDKAHDLFLDMEV----  190 (259)
Q Consensus       122 ~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~---~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----  190 (259)
                             .-.++-.+  ....-++++|+++|++....   +-+  .-...+..+-+.+++...+++|-..+.+-..    
T Consensus       110 -------AAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~  182 (308)
T KOG1585|consen  110 -------AAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADK  182 (308)
T ss_pred             -------HHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHH
Confidence                   11111111  23345677777777765432   111  1123455566667777777776665544321    


Q ss_pred             cCCCCcH-HHHHHHHHHHHhcCCHHHHHHHHHHH---hhCCCccchHHHHHHHHHHHHhcccCCcchh
Q 036731          191 KGVAPNC-VIFTTLMPSFIRKNETSKVIELLRSM---DKRNVMPYASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       191 ~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      ..-.++. ..|...|-.+....++..|.+.++.-   ....-+-+..+...|+.+|-. |+.+++-++
T Consensus       183 ~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd~-gD~E~~~kv  249 (308)
T KOG1585|consen  183 CDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDE-GDIEEIKKV  249 (308)
T ss_pred             HhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhcc-CCHHHHHHH
Confidence            1112222 33555566667778999999999873   333334467778888877743 555555444

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=86.98  E-value=3  Score=23.32  Aligned_cols=46  Identities=7%  Similarity=0.240  Sum_probs=27.3

Q ss_pred             hhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          178 MDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       178 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      ++...++++.++..  +-|..---.++.++...|++++|.++++++.+
T Consensus         6 ~~~~~~~~~~lR~~--RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen    6 LEELEELIDSLRAQ--RHDFLNHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34444555555433  23444555667777788888888877777653

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=86.97  E-value=16  Score=30.08  Aligned_cols=125  Identities=11%  Similarity=0.094  Sum_probs=80.3

Q ss_pred             HHHHHhcCChHHHH-HHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCC
Q 036731           23 IDGLCKEGFVDKAK-ELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRK  101 (259)
Q Consensus        23 l~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  101 (259)
                      |.--...|+.-.|- +++..++...-.|+.....+  ......|+++.+.+.+...... +-....+..++++.....|+
T Consensus       296 i~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~--~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r  372 (831)
T PRK15180        296 ITKQLADGDIIAASQQLFAALRNQQQDPVLIQLRS--VIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLAR  372 (831)
T ss_pred             HHHHhhccCHHHHHHHHHHHHHhCCCCchhhHHHH--HHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhh
Confidence            33344566765554 44555554433344433333  3456778999988887766543 34456677888888888899


Q ss_pred             HHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 036731          102 MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG  157 (259)
Q Consensus       102 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  157 (259)
                      ++.|..+-+.|....+..       ..+........-..|-++++...|+++...+
T Consensus       373 ~~~a~s~a~~~l~~eie~-------~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        373 WREALSTAEMMLSNEIED-------EEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             HHHHHHHHHHHhccccCC-------hhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            999998888887665542       2444444444555677888888888887654

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.62  E-value=9.4  Score=27.14  Aligned_cols=92  Identities=11%  Similarity=0.034  Sum_probs=44.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC  173 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (259)
                      ..+...+++++|+..++..........    ....+-..|.+.....|.+++|+..++.....+..+-.  ...-..++.
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~t~De~----lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~--~elrGDill  170 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQTKDEN----LKALAALRLARVQLQQKKADAALKTLDTIKEESWAAIV--AELRGDILL  170 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHccchhHH----HHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHHHH--HHHhhhHHH
Confidence            345556666666666555443211110    01122333444555566666666666655555443321  111234455


Q ss_pred             hcCChhHHHHHHHHHHhc
Q 036731          174 NDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~  191 (259)
                      ..|+-++|..-|....+.
T Consensus       171 ~kg~k~~Ar~ay~kAl~~  188 (207)
T COG2976         171 AKGDKQEARAAYEKALES  188 (207)
T ss_pred             HcCchHHHHHHHHHHHHc
Confidence            556666666666665555

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=86.19  E-value=8.2  Score=26.06  Aligned_cols=19  Identities=32%  Similarity=0.490  Sum_probs=8.8

Q ss_pred             HHHcCCHHHHHHHHHHHHh
Q 036731           96 LCKNRKMDEATRLLDLMIQ  114 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~  114 (259)
                      +...|++++|.++|+.+.+
T Consensus        54 ~i~rg~w~eA~rvlr~l~~   72 (153)
T TIGR02561        54 LIARGNYDEAARILRELLS   72 (153)
T ss_pred             HHHcCCHHHHHHHHHhhhc
Confidence            3344444444444444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=86.13  E-value=3.4  Score=21.65  Aligned_cols=33  Identities=9%  Similarity=0.274  Sum_probs=19.3

Q ss_pred             HhcCChHHHHHHHHHHhhCCCCCchHhHHHHHH
Q 036731           27 CKEGFVDKAKELFLQMKDENINPNVVTYNSLIH   59 (259)
Q Consensus        27 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~   59 (259)
                      .+.|-..++..++++|.+.|+..+...+..++.
T Consensus        13 k~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~   45 (48)
T PF11848_consen   13 KRRGLISEVKPLLDRLQQAGFRISPKLIEEILR   45 (48)
T ss_pred             HHcCChhhHHHHHHHHHHcCcccCHHHHHHHHH
Confidence            345555566666666666666666655555543

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=84.66  E-value=3.7  Score=31.18  Aligned_cols=46  Identities=13%  Similarity=0.208  Sum_probs=31.7

Q ss_pred             CCCcHHH-HHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHH
Q 036731          193 VAPNCVI-FTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSII  238 (259)
Q Consensus       193 ~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  238 (259)
                      +.|+..+ |+..|+...+.|++++|++++++..+.|..--..+|..-
T Consensus       252 v~~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFik~  298 (303)
T PRK10564        252 MLNDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFISS  298 (303)
T ss_pred             cCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHHHH
Confidence            3345444 567788888888888888888888888776555555443

>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF

Probab=84.45  E-value=1.6  Score=28.69  Aligned_cols=32  Identities=22%  Similarity=0.399  Sum_probs=24.1

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 036731           63 YANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDEL   96 (259)
Q Consensus        63 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   96 (259)
                      ..|.-..|..+|..|++.|-+||.  |+.|+..+
T Consensus       107 ~ygsk~DaY~VF~kML~~G~pPdd--W~~Ll~~a  138 (140)
T PF11663_consen  107 AYGSKTDAYAVFRKMLERGNPPDD--WDALLKEA  138 (140)
T ss_pred             hhccCCcHHHHHHHHHhCCCCCcc--HHHHHHHh
Confidence            345667789999999999988876  67776554

The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=84.06  E-value=14  Score=26.92  Aligned_cols=31  Identities=13%  Similarity=0.165  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 036731          198 VIFTTLMPSFIRKNETSKVIELLRSMDKRNV  228 (259)
Q Consensus       198 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  228 (259)
                      .||-.|.+.+...|+.++|..+|+-....++
T Consensus       238 EtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         238 ETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            4566667777777888888888877665543

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=83.26  E-value=9.2  Score=27.11  Aligned_cols=61  Identities=13%  Similarity=-0.072  Sum_probs=37.3

Q ss_pred             HHHHHHHhhcCChhHHHHHHHHHHH-cCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 036731           55 NSLIHGFCYANDGNEAEYLFIEMMD-RGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        55 ~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  115 (259)
                      ...+......++.+......+.+.+ ....|+..++..++.++...|+.++|.++.+++...
T Consensus       112 ~~~l~~~~~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  112 AALLLLARLPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             HHHHHhhcCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3333333355554444443333332 123678888888888888888888888888877654

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=83.24  E-value=27  Score=34.73  Aligned_cols=119  Identities=6%  Similarity=-0.047  Sum_probs=75.0

Q ss_pred             HHHHHHhhcCChhHHHHHHHHH----HHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHH
Q 036731           56 SLIHGFCYANDGNEAEYLFIEM----MDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYG  131 (259)
Q Consensus        56 ~li~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (259)
                      .+..+-.+++.+.+|...++.-    .+.  ......+..+...|...++++...-+...-..   .         ....
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~--~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a---~---------~sl~ 1453 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEK--ETEEALYFLLQNLYGSIHDPDGVEGVSARRFA---D---------PSLY 1453 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchh--HHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc---C---------ccHH
Confidence            4445667888888998888873    221  11233455555689999998888777664111   1         1333


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 036731          132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDME  189 (259)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  189 (259)
                      .-|......|+++.|...|+.+...+. +...+++-++......|.++.+....+...
T Consensus      1454 ~qil~~e~~g~~~da~~Cye~~~q~~p-~~~~~~~g~l~sml~~~~l~t~i~~~dg~~ 1510 (2382)
T KOG0890|consen 1454 QQILEHEASGNWADAAACYERLIQKDP-DKEKHHSGVLKSMLAIQHLSTEILHLDGLI 1510 (2382)
T ss_pred             HHHHHHHhhccHHHHHHHHHHhhcCCC-ccccchhhHHHhhhcccchhHHHhhhcchh
Confidence            445556677899999999999887642 235566666666566666666655444433

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=83.19  E-value=3.3  Score=31.47  Aligned_cols=29  Identities=24%  Similarity=0.110  Sum_probs=14.7

Q ss_pred             HHHHHHHhhcCChhHHHHHHHHHHHcCCC
Q 036731           55 NSLIHGFCYANDGNEAEYLFIEMMDRGLQ   83 (259)
Q Consensus        55 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~   83 (259)
                      +..|....+.||+++|++++++..+.|+.
T Consensus       261 ~~aI~~AVk~gDi~KAL~LldEAe~LG~~  289 (303)
T PRK10564        261 NQAIKQAVKKGDVDKALKLLDEAERLGST  289 (303)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCc
Confidence            34455555555555555555555555544

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=83.18  E-value=8.7  Score=27.25  Aligned_cols=33  Identities=6%  Similarity=0.132  Sum_probs=26.3

Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          194 APNCVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       194 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      .|++.+|..++.++...|+.++|.++..++...
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            678888888888888888888888888877754

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=83.03  E-value=12  Score=25.24  Aligned_cols=87  Identities=11%  Similarity=0.176  Sum_probs=58.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-----CCChhhHHHHHHHHHhcCC-hhHHHHHHHHHHhcCCCCcHHHH
Q 036731          127 IVAYGCLIDGLCKIGKLKNARELSQSLTRAGL-----MPNVVTYNITIHALCNDEQ-MDKAHDLFLDMEVKGVAPNCVIF  200 (259)
Q Consensus       127 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~~~~~p~~~~~  200 (259)
                      ....+.++......+++.....+++.+.....     ..+...|..++.+.++..- ---+..+|.-+.+.+.++++.-|
T Consensus        39 ~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy  118 (145)
T PF13762_consen   39 TIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDY  118 (145)
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            35567777777777888888888777743210     2355677888887766555 34556677777777778888888


Q ss_pred             HHHHHHHHhcCCH
Q 036731          201 TTLMPSFIRKNET  213 (259)
Q Consensus       201 ~~l~~~~~~~~~~  213 (259)
                      ..++.++.+-...
T Consensus       119 ~~li~~~l~g~~~  131 (145)
T PF13762_consen  119 SCLIKAALRGYFH  131 (145)
T ss_pred             HHHHHHHHcCCCC
Confidence            8888877665433

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=82.52  E-value=9.5  Score=23.81  Aligned_cols=87  Identities=16%  Similarity=0.106  Sum_probs=58.6

Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Q 036731          142 KLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLR  221 (259)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  221 (259)
                      ..++|..+-+.+...+-. ...+--+-+..+.+.|++++|..+.+.+    ..||...|.+|-.  .+.|..+++..-+.
T Consensus        20 cHqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce--~rlGl~s~l~~rl~   92 (115)
T TIGR02508        20 CHQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKL----CYPDLEPWLALCE--WRLGLGSALESRLN   92 (115)
T ss_pred             HHHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCC----CCchHHHHHHHHH--HhhccHHHHHHHHH
Confidence            357777777777765422 2222222345577899999999888766    3788888877654  57888888888888


Q ss_pred             HHhhCCCccchHHHH
Q 036731          222 SMDKRNVMPYASILS  236 (259)
Q Consensus       222 ~~~~~~~~~~~~~~~  236 (259)
                      +|...| .|....|.
T Consensus        93 rla~sg-~p~lq~Fa  106 (115)
T TIGR02508        93 RLAASG-DPRLQTFV  106 (115)
T ss_pred             HHHhCC-CHHHHHHH
Confidence            888776 45444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=82.15  E-value=8.8  Score=32.61  Aligned_cols=32  Identities=19%  Similarity=0.228  Sum_probs=0.0

Q ss_pred             hcCCHHHHHHHHHHHhhCCCccchHHHHHHHH
Q 036731          209 RKNETSKVIELLRSMDKRNVMPYASILSIIVD  240 (259)
Q Consensus       209 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  240 (259)
                      +.+++.+|.+.+-.+.+.+..|...-...+.+
T Consensus       507 ~~~~~~~Aa~~Lv~Ll~~~~~Pk~f~~~LL~d  538 (566)
T PF07575_consen  507 DEGDFREAASLLVSLLKSPIAPKSFWPLLLCD  538 (566)
T ss_dssp             --------------------------------
T ss_pred             hhhhHHHHHHHHHHHHCCCCCcHHHHHHHHHH
Confidence            34777777777777776666665444433333

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []

Probab=82.13  E-value=14  Score=27.43  Aligned_cols=61  Identities=8%  Similarity=0.015  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHH----cC-CCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTR----AG-LMPNVVTYNITIHALCNDEQMDKAHDLFLDM  188 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  188 (259)
                      .....+..-|...|++++|.++|+.+..    .| ..+...+...+..++...|+.+....+.-++
T Consensus       179 ~l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l~~~leL  244 (247)
T PF11817_consen  179 YLSLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYLTTSLEL  244 (247)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            5566677777777777777777776642    23 2334455666666777777777666655444

Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.

>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF

Probab=81.85  E-value=2.2  Score=28.04  Aligned_cols=32  Identities=13%  Similarity=0.269  Sum_probs=22.2

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 036731          139 KIGKLKNARELSQSLTRAGLMPNVVTYNITIHAL  172 (259)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  172 (259)
                      ..|.-..|..+|+.|.+.|-+||  .|+.|+..+
T Consensus       107 ~ygsk~DaY~VF~kML~~G~pPd--dW~~Ll~~a  138 (140)
T PF11663_consen  107 AYGSKTDAYAVFRKMLERGNPPD--DWDALLKEA  138 (140)
T ss_pred             hhccCCcHHHHHHHHHhCCCCCc--cHHHHHHHh
Confidence            34556677888888888887776  467766543

The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].

>PHA02875 ankyrin repeat protein; Provisional

Probab=81.47  E-value=24  Score=28.51  Aligned_cols=80  Identities=24%  Similarity=0.233  Sum_probs=44.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhCCCCCchHh--HHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchh--hHHHHHHHHHH
Q 036731           23 IDGLCKEGFVDKAKELFLQMKDENINPNVVT--YNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVV--TFNVIMDELCK   98 (259)
Q Consensus        23 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~   98 (259)
                      +...++.|+.+-+..++    +.|..|+...  ..+.+..++..|+.+-    .+.+.+.|..|+..  ...+.+...+.
T Consensus         6 L~~A~~~g~~~iv~~Ll----~~g~~~n~~~~~g~tpL~~A~~~~~~~~----v~~Ll~~ga~~~~~~~~~~t~L~~A~~   77 (413)
T PHA02875          6 LCDAILFGELDIARRLL----DIGINPNFEIYDGISPIKLAMKFRDSEA----IKLLMKHGAIPDVKYPDIESELHDAVE   77 (413)
T ss_pred             HHHHHHhCCHHHHHHHH----HCCCCCCccCCCCCCHHHHHHHcCCHHH----HHHHHhCCCCccccCCCcccHHHHHHH
Confidence            44455677776555444    4566665432  2344555566777654    44445566555432  12334556667


Q ss_pred             cCCHHHHHHHHH
Q 036731           99 NRKMDEATRLLD  110 (259)
Q Consensus        99 ~~~~~~a~~~~~  110 (259)
                      .|+.+.+..+++
T Consensus        78 ~g~~~~v~~Ll~   89 (413)
T PHA02875         78 EGDVKAVEELLD   89 (413)
T ss_pred             CCCHHHHHHHHH
Confidence            888776655554

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=80.75  E-value=7.8  Score=21.64  Aligned_cols=23  Identities=17%  Similarity=0.208  Sum_probs=12.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Q 036731           91 VIMDELCKNRKMDEATRLLDLMI  113 (259)
Q Consensus        91 ~l~~~~~~~~~~~~a~~~~~~~~  113 (259)
                      .++.++...|++++|.+.+.++.
T Consensus        28 qvI~gllqlg~~~~a~eYi~~~~   50 (62)
T PF14689_consen   28 QVIYGLLQLGKYEEAKEYIKELS   50 (62)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHH
Confidence            35555666666666666555554

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=80.66  E-value=25  Score=27.64  Aligned_cols=88  Identities=11%  Similarity=0.036  Sum_probs=50.8

Q ss_pred             HHHhhcCChhHHHHHHHHHHHcCCCC-chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHH
Q 036731           59 HGFCYANDGNEAEYLFIEMMDRGLQS-DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGL  137 (259)
Q Consensus        59 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  137 (259)
                      +-|.++|.+++|+..|..-...  .| |.+++..-..+|.+...+..|+.=.......+..       -+..|..-+.+-
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~-------Y~KAYSRR~~AR  175 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKL-------YVKAYSRRMQAR  175 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHH-------HHHHHHHHHHHH
Confidence            4567788888888888776654  33 7777777777888877776665544444322110       123344444444


Q ss_pred             HhcCChHHHHHHHHHHHH
Q 036731          138 CKIGKLKNARELSQSLTR  155 (259)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~  155 (259)
                      ...|...+|.+=++....
T Consensus       176 ~~Lg~~~EAKkD~E~vL~  193 (536)
T KOG4648|consen  176 ESLGNNMEAKKDCETVLA  193 (536)
T ss_pred             HHHhhHHHHHHhHHHHHh
Confidence            444455555554444444

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=80.49  E-value=6.5  Score=20.59  Aligned_cols=30  Identities=20%  Similarity=0.252  Sum_probs=13.7

Q ss_pred             hcCCHHHHHHHHHHHhhCCCccchHHHHHH
Q 036731          209 RKNETSKVIELLRSMDKRNVMPYASILSII  238 (259)
Q Consensus       209 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  238 (259)
                      +.|-.+++..++++|.+.|+..+...+..+
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~   43 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEI   43 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHH
Confidence            334444444444444444444444444443

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=80.49  E-value=24  Score=29.96  Aligned_cols=90  Identities=11%  Similarity=0.021  Sum_probs=62.1

Q ss_pred             HhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhc
Q 036731           61 FCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKI  140 (259)
Q Consensus        61 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  140 (259)
                      +.-.|+...|...+.........-..+....|.....+.|....|..++.+.......       .+-++..+.+++...
T Consensus       617 wr~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~s-------epl~~~~~g~~~l~l  689 (886)
T KOG4507|consen  617 WRAVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINSS-------EPLTFLSLGNAYLAL  689 (886)
T ss_pred             eeecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhccc-------CchHHHhcchhHHHH
Confidence            3456788888888777664433223344555666777777777888887776655422       126778888888888


Q ss_pred             CChHHHHHHHHHHHHcC
Q 036731          141 GKLKNARELSQSLTRAG  157 (259)
Q Consensus       141 ~~~~~a~~~~~~~~~~~  157 (259)
                      .+++.|++.|++..+..
T Consensus       690 ~~i~~a~~~~~~a~~~~  706 (886)
T KOG4507|consen  690 KNISGALEAFRQALKLT  706 (886)
T ss_pred             hhhHHHHHHHHHHHhcC
Confidence            89999999998887764

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=80.26  E-value=11  Score=22.85  Aligned_cols=37  Identities=11%  Similarity=0.186  Sum_probs=17.9

Q ss_pred             hcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH
Q 036731          174 NDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSK  215 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  215 (259)
                      ..|+.+.|.+++..+. .  .|  ..|..++.++...|.-.-
T Consensus        48 ~~g~~~~ar~LL~~L~-r--g~--~aF~~Fl~aLreT~~~~L   84 (88)
T cd08819          48 NHGNESGARELLKRIV-Q--KE--GWFSKFLQALRETEHHEL   84 (88)
T ss_pred             ccCcHHHHHHHHHHhc-c--CC--cHHHHHHHHHHHcCchhh
Confidence            3455555555555555 3  12  234455555555544433

Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=80.26  E-value=35  Score=28.83  Aligned_cols=185  Identities=10%  Similarity=0.014  Sum_probs=89.9

Q ss_pred             chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHH
Q 036731           50 NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVA  129 (259)
Q Consensus        50 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  129 (259)
                      +..+|+.-+..-.+.|+.+.+.-+|++..-. +..=...|-..+.-....|+.+.|..++.+..+.-.+..+      .+
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~------~i  368 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTP------II  368 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCc------HH
Confidence            3455666666666777777777777665532 1112334444444444557766666666555443332211      22


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCChhHHH---HHHHHHHhcCCCCcHHHHHHHHH
Q 036731          130 YGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVV-TYNITIHALCNDEQMDKAH---DLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~---~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      .-.-....-..|+++.|..+++.+...-  |+.. .-..-+....+.|+.+.+.   .++......  .-+......+.-
T Consensus       369 ~L~~a~f~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~--~~~~~i~~~l~~  444 (577)
T KOG1258|consen  369 HLLEARFEESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEG--KENNGILEKLYV  444 (577)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccc--ccCcchhHHHHH
Confidence            2222222334567777777777766552  3321 2222233444556666555   222222221  111112222211


Q ss_pred             -----HHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhc
Q 036731          206 -----SFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNE  246 (259)
Q Consensus       206 -----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  246 (259)
                           .+.-.++.+.|..++.++.+. .+++...|..+++.....+
T Consensus       445 ~~~r~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  445 KFARLRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence                 122346667777777776654 3445555555555544443

>PRK09462 fur ferric uptake regulator; Provisional

Probab=80.07  E-value=15  Score=24.85  Aligned_cols=36  Identities=6%  Similarity=-0.026  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhccc
Q 036731          213 TSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEIS  248 (259)
Q Consensus       213 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  248 (259)
                      .-.|.++++.+.+.+...+..|....++.+...|-.
T Consensus        33 h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli   68 (148)
T PRK09462         33 HVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIV   68 (148)
T ss_pred             CCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCCE
Confidence            444555555555444444444444444455444443

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=80.06  E-value=19  Score=25.69  Aligned_cols=132  Identities=8%  Similarity=0.026  Sum_probs=85.4

Q ss_pred             chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhh
Q 036731           85 DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVT  164 (259)
Q Consensus        85 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  164 (259)
                      -...|..++.... .+.+ +.....+.+.........    -.-.-..+...+...+++++|...++.....   |....
T Consensus        53 AS~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Y----a~laaL~lAk~~ve~~~~d~A~aqL~~~l~~---t~De~  123 (207)
T COG2976          53 ASAQYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIY----AVLAALELAKAEVEANNLDKAEAQLKQALAQ---TKDEN  123 (207)
T ss_pred             HHHHHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHH----HHHHHHHHHHHHHhhccHHHHHHHHHHHHcc---chhHH
Confidence            3445555555554 2333 444555555554322111    2233344567788999999999999988764   22223


Q ss_pred             H-----HHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          165 Y-----NITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       165 ~-----~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      +     -.|.+.....|.+++|+..++...+.+..  ......-.+.+...|+-++|..-|....+.+
T Consensus       124 lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         124 LKALAALRLARVQLQQKKADAALKTLDTIKEESWA--AIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            3     33456677899999999999888766432  2233444578899999999999999988775

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	259
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-17
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-12
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-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 = 80.6 bits (197), Expect = 2e-17
 Identities = 23/181 (12%), Positives = 59/181 (32%), Gaps = 10/181 (5%)

Query: 13  KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENIN---PNVVTYNSLIHGFCYANDGNE 69
                              +  A  L +    +        +  YN+++ G+       E
Sbjct: 124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKE 183

Query: 70  AEYLFIEMMDRGLQSDVVTFNVIMDELCK-NRKMDEATRLLDLMIQGGVRPDAFCEINIV 128
             Y+   + D GL  D++++   +  + + ++      R L+ M Q G       ++  +
Sbjct: 184 LVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEG------LKLQAL 237

Query: 129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDM 188
               L+    +   LK   ++  + +    +P  V  +  +  +   +       L L +
Sbjct: 238 FTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPL 297

Query: 189 E 189
           +
Sbjct: 298 K 298

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 65.2 bits (157), Expect = 3e-12
 Identities = 14/138 (10%), Positives = 36/138 (26%), Gaps = 10/138 (7%)

Query: 98  KNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSL---T 154
               +D          Q  +                        +L  A  L        
Sbjct: 104 GKLSLDVEQAPSGQHSQAQLSGQ------QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQR 157

Query: 155 RAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETS 214
           +   +  +  YN  +          +   +   ++  G+ P+ + +   +    R+++ +
Sbjct: 158 QKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDA 217

Query: 215 KVIE-LLRSMDKRNVMPY 231
             IE  L  M +  +   
Sbjct: 218 GTIERCLEQMSQEGLKLQ 235

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 46.7 bits (109), Expect = 4e-06
 Identities = 10/124 (8%), Positives = 35/124 (28%), Gaps = 1/124 (0%)

Query: 12  CKPNTVTYNTIIDGLCKEG-FVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEA 70
             P+ ++Y   +  + ++       +    QM  E +    +    L+     A      
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV 255

Query: 71  EYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAY 130
             +             V  + ++ ++          +L   +       +    + + + 
Sbjct: 256 HKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASR 315

Query: 131 GCLI 134
            C++
Sbjct: 316 VCVV 319

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 45.6 bits (107), Expect = 8e-06
 Identities = 44/318 (13%), Positives = 96/318 (30%), Gaps = 96/318 (30%)

Query: 6   REFGVVCK-PNTVTYNTIIDGLCK--EGFVDKAKELFLQMKDENINPNVVTYNSLIHGFC 62
             + V CK    + +  +    C   E  ++  ++L  Q+ D N        +++     
Sbjct: 172 LSYKVQCKMDFKIFWLNL--KNCNSPETVLEMLQKLLYQI-DPNWTSRSDHSSNIKLRI- 227

Query: 63  YANDGNEA--EYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEA----------TRLLD 110
             +         L  +  +  L        +++  +  N K   A          TR   
Sbjct: 228 --HSIQAELRRLLKSKPYENCL--------LVLLNVQ-NAKAWNAFNLSCKILLTTR--F 274

Query: 111 LMIQGGVRPDAFCEINIVAYGCLIDGL--------------CKIGKLKNARE------LS 150
             +   +       I++         L              C+   L   RE        
Sbjct: 275 KQVTDFLSAATTTHISLDH---HSMTLTPDEVKSLLLKYLDCRPQDLP--REVLTTNPRR 329

Query: 151 QSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDM----EVKGVAPNCVIFTTLMPS 206
            S+    +   + T++   H   N +++    +  L++    E + +     +F      
Sbjct: 330 LSIIAESIRDGLATWDNWKHV--NCDKLTTIIESSLNVLEPAEYRKMFDRLSVF------ 381

Query: 207 FIRKNE--TSKVIELL------------------RSM-DKRNVMPYASILSIIVDLLVK- 244
               +    + ++ L+                   S+ +K+      SI SI ++L VK 
Sbjct: 382 --PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKL 439

Query: 245 -NEISLNS--IPQFNRQK 259
            NE +L+   +  +N  K
Sbjct: 440 ENEYALHRSIVDHYNIPK 457

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	259
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.96
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.94
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.89
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.89
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.87
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.87
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.87
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.87
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.86
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.83
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.83
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.82
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.81
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.81
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.81
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.81
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.81
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.8
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.79
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.79
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.79
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.78
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.77
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.77
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.76
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.75
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.75
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.75
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.74
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.73
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.73
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.73
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.72
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.7
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.69
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.68
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.68
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.68
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.68
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.67
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.67
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.65
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.63
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.62
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.62
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.62
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.6
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.59
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.58
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.57
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.57
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.57
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.57
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.56
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.56
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.56
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.55
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.55
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.55
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.54
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.54
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.53
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.52
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.51
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.49
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.48
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.46
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.46
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.44
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.44
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.43
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.42
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.42
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.4
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.4
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.4
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.39
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.38
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.36
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.36
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.35
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.33
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.33
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.32
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.32
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.32
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.31
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.31
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.3
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.3
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.28
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.27
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.24
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.24
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.24
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.23
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.23
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.23
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.23
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.23
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.22
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.22
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.16
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.15
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.15
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.14
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.1
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.1
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.09
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.09
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.08
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.03
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.03
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.02
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.02
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.01
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.01
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.01
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.01
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.0
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.0
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.0
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.99
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.99
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.98
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.98
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.97
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.97
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.95
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.95
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.94
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.92
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.91
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.91
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.87
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.84
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.84
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.83
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.83
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.82
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.82
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.82
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.81
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.81
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.8
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.79
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.79
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.76
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.75
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.74
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.74
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.74
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.74
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.73
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.73
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.72
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.72
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.71
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.7
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.69
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.68
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.66
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.63
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.6
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.6
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.59
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.58
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.58
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.57
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.55
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.55
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.54
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.53
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.5
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.46
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.46
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.46
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.45
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.42
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.41
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.4
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.4
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.4
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.39
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.31
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.3
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.3
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.28
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.26
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.26
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.17
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.1
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.09
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.07
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.05
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.03
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.87
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.85
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.84
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.81
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.81
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.71
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.63
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.62
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.61
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.6
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.6
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.42
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.35
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	97.2
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.15
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.13
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.11
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.08
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.06
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.03
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.0
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.82
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.78
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.51
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.24
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.12
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.98
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.98
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.9
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.81
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.68
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.65
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	95.45
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.44
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.14
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.07
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	94.69
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.5
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	94.45
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.34
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	93.74
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.61
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	93.53
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.3
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	92.57
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.14
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.53
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	90.66
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	90.31
2p58_C	116	Putative type III secretion protein YSCG; type III	90.0
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	89.85
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	89.61
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	88.28
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	88.09
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	87.68
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	87.28
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	86.95
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	85.74
3hra_A	201	Ankyrin repeat family protein; structural protein;	84.78
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	84.61
2zu6_B	307	Programmed cell death protein 4; protein-protein c	82.77
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	81.02
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	80.42
2fe3_A	145	Peroxide operon regulator; oxidative stress regula	80.39

>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=1.3e-38  Score=254.36  Aligned_cols=212  Identities=16%  Similarity=0.182  Sum_probs=182.5

Q ss_pred             HHHHHHHHHHhhCCCCCch-HhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCC---------H
Q 036731           33 DKAKELFLQMKDENINPNV-VTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRK---------M  102 (259)
Q Consensus        33 ~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~  102 (259)
                      ..+..+.+++.+.+..+.+ ..++.+|.+|++.|++++|+++|++|.+.|+.||..+|++||.+|++.+.         +
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            3456666777777665543 46888899999999999999999999999999999999999999987654         6


Q ss_pred             HHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHH
Q 036731          103 DEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAH  182 (259)
Q Consensus       103 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  182 (259)
                      +.|.++|++|...|+.|+      ..+|+++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.
T Consensus        87 ~~A~~lf~~M~~~G~~Pd------~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~  160 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPN------EATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAY  160 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCC------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCC------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHH
Confidence            889999999999999885      59999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCC
Q 036731          183 DLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLN  250 (259)
Q Consensus       183 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  250 (259)
                      ++|++|.+.|+.||..||+.||.+|++.|++++|.+++++|.+.+..|+..||+.++..|...+....
T Consensus       161 ~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~a~~~  228 (501)
T 4g26_A          161 EVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEVATKT  228 (501)
T ss_dssp             HHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHHHHTC
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCcchhh
Confidence            99999999999999999999999999999999999999999999999999999999999987655443

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=1.1e-37  Score=248.95  Aligned_cols=195  Identities=15%  Similarity=0.190  Sum_probs=181.3

Q ss_pred             ccccCCH-HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCC---------hhHHHHHHHHHHH
Q 036731           10 VVCKPNT-VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAND---------GNEAEYLFIEMMD   79 (259)
Q Consensus        10 ~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~---------~~~a~~~~~~~~~   79 (259)
                      ++..+.+ ..++.+|.+|++.|++++|.++|++|.+.|++||..+|+.||.+|++.+.         ++.|.++|++|..
T Consensus        19 k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~   98 (501)
T 4g26_A           19 KAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIV   98 (501)
T ss_dssp             -----CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHH
T ss_pred             hcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHH
Confidence            3444443 46889999999999999999999999999999999999999999988765         6789999999999


Q ss_pred             cCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 036731           80 RGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM  159 (259)
Q Consensus        80 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  159 (259)
                      .|+.||..||+++|.+|++.|++++|.++|++|.+.|+.|+      ..+|+.+|.+|++.|++++|.++|++|.+.|+.
T Consensus        99 ~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd------~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~  172 (501)
T 4g26_A           99 DKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPR------LRSYGPALFGFCRKGDADKAYEVDAHMVESEVV  172 (501)
T ss_dssp             TTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCC------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCC
T ss_pred             hCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc------cceehHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999999999999999999999885      599999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 036731          160 PNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRK  210 (259)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  210 (259)
                      ||..||+.+|.+|++.|+.++|.+++++|.+.|..|+..||+.++..|...
T Consensus       173 Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          173 PEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             CCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999999988753

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.96  E-value=1.7e-26  Score=189.89  Aligned_cols=245  Identities=11%  Similarity=0.009  Sum_probs=214.9

Q ss_pred             CCccccccccc--CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731            3 NGNREFGVVCK--PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus         3 ~a~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      +|.++|+...+  +++.+|+.++.+|.+.|++++|.++|+++.+.+ +.+..++..++.++.+.|++++|..+++++.+.
T Consensus       290 ~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  368 (597)
T 2xpi_A          290 RAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDR  368 (597)
T ss_dssp             HHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Confidence            45666666655  899999999999999999999999999998765 447889999999999999999999999999866


Q ss_pred             CCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 036731           81 GLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP  160 (259)
Q Consensus        81 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (259)
                      . +.+..+++.++.+|.+.|++++|.++|+++.+.  .|+     +..+|+.++.+|.+.|++++|..+|+++.+.+ +.
T Consensus       369 ~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~  439 (597)
T 2xpi_A          369 H-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTM--DPQ-----FGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QG  439 (597)
T ss_dssp             C-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT-----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TT
T ss_pred             C-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cc
Confidence            3 447889999999999999999999999999874  333     46899999999999999999999999998875 34


Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCccc--hHH
Q 036731          161 NVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR----NVMPY--ASI  234 (259)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~  234 (259)
                      +..+|..++.+|.+.|++++|.++|+++.+.. +.+..+|..++..|.+.|++++|.++|+++.+.    +..|+  ..+
T Consensus       440 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~  518 (597)
T 2xpi_A          440 THLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAAT  518 (597)
T ss_dssp             CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHH
T ss_pred             chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHH
Confidence            78899999999999999999999999998763 447889999999999999999999999998765    55676  789


Q ss_pred             HHHHHHHHHHhcccCCcchhhhcc
Q 036731          235 LSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       235 ~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      +..++.+|.+.|++++|++.|+++
T Consensus       519 ~~~l~~~~~~~g~~~~A~~~~~~~  542 (597)
T 2xpi_A          519 WANLGHAYRKLKMYDAAIDALNQG  542 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHH
Confidence            999999999999999999998763

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.94  E-value=1.1e-24  Score=179.03  Aligned_cols=245  Identities=13%  Similarity=0.026  Sum_probs=215.4

Q ss_pred             CCcccccccc---cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHH
Q 036731            3 NGNREFGVVC---KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMD   79 (259)
Q Consensus         3 ~a~~~~~~~~---~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~   79 (259)
                      +|.++|+...   +.+..+|+.++.++.+.|++++|.++++++.+.. +.+..+++.++..|.+.|++++|.++|+++.+
T Consensus       323 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  401 (597)
T 2xpi_A          323 DVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSST  401 (597)
T ss_dssp             HHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3445555443   3477889999999999999999999999998653 55788999999999999999999999999988


Q ss_pred             cCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 036731           80 RGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM  159 (259)
Q Consensus        80 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  159 (259)
                      .. +.+..+|+.++.+|.+.|++++|.++|+++.+.+.  +     +..+|+.++.+|.+.|++++|..+|+++.+... 
T Consensus       402 ~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-  472 (597)
T 2xpi_A          402 MD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQ--G-----THLPYLFLGMQHMQLGNILLANEYLQSSYALFQ-  472 (597)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTT--T-----CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc--c-----chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-
Confidence            63 33678999999999999999999999999987643  2     458999999999999999999999999998753 


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHhc----CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchH
Q 036731          160 PNVVTYNITIHALCNDEQMDKAHDLFLDMEVK----GVAPN--CVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYAS  233 (259)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  233 (259)
                      .+..+|..++..+.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.+.++++.+.+ +.+..
T Consensus       473 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~  551 (597)
T 2xpi_A          473 YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDAN  551 (597)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHH
T ss_pred             CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChH
Confidence            37889999999999999999999999999876    66787  7899999999999999999999999998775 44789


Q ss_pred             HHHHHHHHHHHhcccCCcchhhhcc
Q 036731          234 ILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       234 ~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      ++..+..+|.+.|++++|.+.|+++
T Consensus       552 ~~~~l~~~~~~~g~~~~A~~~~~~~  576 (597)
T 2xpi_A          552 VHTAIALVYLHKKIPGLAITHLHES  576 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            9999999999999999999998763

>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=99.89  E-value=3.5e-20  Score=144.66  Aligned_cols=233  Identities=12%  Similarity=0.044  Sum_probs=134.2

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      .+..+|..+...+.+.|++++|.+.|+++.+.. +.+..+|..+..++...|++++|.+.|+++.+... .+...+..+.
T Consensus        65 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~  142 (388)
T 1w3b_A           65 LLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLG  142 (388)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHH
T ss_pred             CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHH
Confidence            356677777777777777777777777776542 22345566677777777777777777766665532 1344455566


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--------------
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM--------------  159 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------------  159 (259)
                      ..+...|++++|.+.|+++.+.  .|+     +..+|..+...+...|++++|...|+++.+.+..              
T Consensus       143 ~~~~~~g~~~~A~~~~~~al~~--~p~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~  215 (388)
T 1w3b_A          143 NLLKALGRLEEAKACYLKAIET--QPN-----FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKE  215 (388)
T ss_dssp             HHHHTTSCHHHHHHHHHHHHHH--CTT-----CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHccCHHHHHHHHHHHHHh--CCC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHH
Confidence            6666666666666666666553  222     3355666666666666666666666655543211              


Q ss_pred             ------------------C-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHH
Q 036731          160 ------------------P-NVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELL  220 (259)
Q Consensus       160 ------------------~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  220 (259)
                                        | +..++..+..++...|++++|...++++.+.+ +.+..++..+...+.+.|++++|.+.+
T Consensus       216 ~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~  294 (388)
T 1w3b_A          216 ARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCY  294 (388)
T ss_dssp             TTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence                              1 23444555555555555555555555555442 223445555555555566666666666


Q ss_pred             HHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          221 RSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       221 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      +++.+.. +.+..++..+...+.+.|++++|++.|++
T Consensus       295 ~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  330 (388)
T 1w3b_A          295 NTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRK  330 (388)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5555442 33445555555666666666666555543

>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=99.89  E-value=5e-20  Score=143.78  Aligned_cols=237  Identities=11%  Similarity=0.050  Sum_probs=174.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +..+|..+..++.+.|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.|+++.+.. +.+..+|..+..
T Consensus       100 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  177 (388)
T 1w3b_A          100 FIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGC  177 (388)
T ss_dssp             CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34556666777777777777777776666542 2234445555566666666666666666666542 223455556666


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCc-----------------------------cchhHHHHHHHHHHHHhcCChHH
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAF-----------------------------CEINIVAYGCLIDGLCKIGKLKN  145 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----------------------------~~~~~~~~~~l~~~~~~~~~~~~  145 (259)
                      ++...|++++|...|+++.+.+  |+..                             .+.+..++..+..++...|++++
T Consensus       178 ~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  255 (388)
T 1w3b_A          178 VFNAQGEIWLAIHHFEKAVTLD--PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDL  255 (388)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHH
Confidence            6666666666666665554421  1110                             11146788899999999999999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          146 ARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       146 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      |...|+++.+.+. .+..+|..+..++.+.|++++|...++++.+.. +.+..++..+...+...|++++|.+.++++.+
T Consensus       256 A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  333 (388)
T 1w3b_A          256 AIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALE  333 (388)
T ss_dssp             HHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999999998743 256789999999999999999999999998873 56788999999999999999999999999987


Q ss_pred             CCCccchHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          226 RNVMPYASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       226 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      .. +.+..++..+..++.+.|++++|++.|++.
T Consensus       334 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  365 (388)
T 1w3b_A          334 VF-PEFAAAHSNLASVLQQQGKLQEALMHYKEA  365 (388)
T ss_dssp             SC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             cC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            63 446788999999999999999999998753

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.87  E-value=3.4e-22  Score=166.06  Aligned_cols=130  Identities=8%  Similarity=0.081  Sum_probs=118.3

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHH---cCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTR---AGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTT  202 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  202 (259)
                      -..+|+++|++|++.|++++|..+|++|.+   .|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++
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            457999999999999999999999988764   58999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCH-HHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhh
Q 036731          203 LMPSFIRKNET-SKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQF  255 (259)
Q Consensus       203 l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  255 (259)
                      +|.++++.|+. ++|.++|++|.+.|+.||..+|+.++....+.+-.+...++.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~  259 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVK  259 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhC
Confidence            99999999984 789999999999999999999998888877776655554443

>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=99.87  E-value=1.6e-19  Score=143.54  Aligned_cols=233  Identities=12%  Similarity=0.066  Sum_probs=196.9

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      .++..|..+...+.+.|++++|..+|+++.+.. +.+..++..+..++...|++++|...|+++.+.+. .+..++..+.
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~  101 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKM-DFTAARLQRG  101 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CcHHHHHHHH
Confidence            367789999999999999999999999998763 45788999999999999999999999999998753 3678899999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhH---HHHHHH------------HHHHHhcCChHHHHHHHHHHHHcCC
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINI---VAYGCL------------IDGLCKIGKLKNARELSQSLTRAGL  158 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~  158 (259)
                      .+|...|++++|...|+++.+..  |+     +.   ..+..+            ...+...|++++|...++++.+.. 
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~--~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-  173 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSN--PS-----ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-  173 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSC--CC-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC--CC-----ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            99999999999999999998753  33     34   455555            445899999999999999998864 


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHH
Q 036731          159 MPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSII  238 (259)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  238 (259)
                      +.+..++..+..++...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+... .+...+..+
T Consensus       174 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~~  251 (450)
T 2y4t_A          174 VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHY  251 (450)
T ss_dssp             TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ChHHHHHHH
Confidence            3377889999999999999999999999998763 45688999999999999999999999999986532 234444444


Q ss_pred             ------------HHHHHHhcccCCcchhhhcc
Q 036731          239 ------------VDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       239 ------------~~~~~~~g~~~~a~~~~~~~  258 (259)
                                  ...+...|++++|++.|+++
T Consensus       252 ~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~  283 (450)
T 2y4t_A          252 KQVKKLNKLIESAEELIRDGRYTDATSKYESV  283 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                        78899999999999988763

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.87  E-value=5.9e-22  Score=164.62  Aligned_cols=150  Identities=13%  Similarity=0.181  Sum_probs=124.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhh---CCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKD---ENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVI   92 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   92 (259)
                      ..|||++|++|++.|++++|.++|.+|.+   .|..||..|||+||.+|++.|++++|.++|++|.+.|+.||..||+++
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            46899999999999999999999988764   489999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCH-HHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC------hhhH
Q 036731           93 MDELCKNRKM-DEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN------VVTY  165 (259)
Q Consensus        93 ~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~  165 (259)
                      |.++++.|+. ++|.++|++|.+.|+.|      |..+|++++..+.+.    .+++..+++ ..+..|+      ..+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~P------D~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~  275 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKL------QALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTS  275 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCS------HHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCC
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCC------ChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccch
Confidence            9999999984 78999999999999988      569999999776654    344444444 2334433      4455


Q ss_pred             HHHHHHHHhcC
Q 036731          166 NITIHALCNDE  176 (259)
Q Consensus       166 ~~li~~~~~~~  176 (259)
                      ..|...|.+.+
T Consensus       276 ~LL~dl~s~d~  286 (1134)
T 3spa_A          276 KLLRDVYAKDG  286 (1134)
T ss_dssp             TTTHHHHCCCS
T ss_pred             HHHHHHHccCC
Confidence            55666666554

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.87  E-value=7.1e-20  Score=141.77  Aligned_cols=240  Identities=7%  Similarity=-0.059  Sum_probs=193.2

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      .+...|..+...+.+.|++++|..+|+++.+.. +.+..+|..+...+...|++++|...|+++.+.. +.+..++..+.
T Consensus        63 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  140 (365)
T 4eqf_A           63 KDWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALA  140 (365)
T ss_dssp             TTCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            356679999999999999999999999998864 4578899999999999999999999999999874 33688899999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCc---cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CChhhHHHHH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAF---CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM-PNVVTYNITI  169 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li  169 (259)
                      .+|...|++++|...++++.+........   .......+..+...+...|++++|..+++++.+.... ++..++..+.
T Consensus       141 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          141 VSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            99999999999999999998743210000   0001233445688999999999999999999887432 1577899999


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccC
Q 036731          170 HALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISL  249 (259)
Q Consensus       170 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  249 (259)
                      ..+...|++++|...++++.+.. +.+..++..+..++...|++++|...++++.+.. +.+..++..+..+|...|+++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            99999999999999999998873 4468899999999999999999999999998764 335788999999999999999


Q ss_pred             Ccchhhhc
Q 036731          250 NSIPQFNR  257 (259)
Q Consensus       250 ~a~~~~~~  257 (259)
                      +|++.|++
T Consensus       299 ~A~~~~~~  306 (365)
T 4eqf_A          299 EAVSNFLT  306 (365)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998875

>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=99.86  E-value=5.8e-19  Score=140.24  Aligned_cols=235  Identities=10%  Similarity=0.024  Sum_probs=122.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCch---hhHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDV---VTFNV   91 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~   91 (259)
                      +..+|..+..++.+.|++++|...|+++.+.+ +.+..++..+..++...|++++|...|+++.+.... +.   ..+..
T Consensus        59 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~  136 (450)
T 2y4t_A           59 NYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQ  136 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHH
Confidence            55666666666666666666666666666543 234556666666666666666666666666554211 22   33333


Q ss_pred             H------------HHHHHHcCCHHHHHHHHHHHHhCCCCCCCc-----------------------------cchhHHHH
Q 036731           92 I------------MDELCKNRKMDEATRLLDLMIQGGVRPDAF-----------------------------CEINIVAY  130 (259)
Q Consensus        92 l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----------------------------~~~~~~~~  130 (259)
                      +            ...+...|++++|...|+++.+..  |+..                             .+.+..++
T Consensus       137 l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  214 (450)
T 2y4t_A          137 LIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC--VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAF  214 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            3            222555555555555555554431  1100                             00123455


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHH------------HHHHHhcCChhHHHHHHHHHHhcCCCCc--
Q 036731          131 GCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNIT------------IHALCNDEQMDKAHDLFLDMEVKGVAPN--  196 (259)
Q Consensus       131 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------------i~~~~~~~~~~~a~~~~~~~~~~~~~p~--  196 (259)
                      ..+..+|...|++++|...|+++..... .+...+..+            ...+...|++++|...|+++.+.  .|+  
T Consensus       215 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~  291 (450)
T 2y4t_A          215 YKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIA  291 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCC-ChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcch
Confidence            5555555555555555555555544321 122222222            44555555555555555555543  222  


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          197 ---CVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       197 ---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                         ...+..+...+.+.|++++|...++++.+.. +.+...+..+..+|...|++++|++.|++
T Consensus       292 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~  354 (450)
T 2y4t_A          292 EYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYET  354 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence               2345555556666666666666666655432 22445566666666666666666655543

>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=99.85  E-value=3.2e-18  Score=132.43  Aligned_cols=239  Identities=11%  Similarity=-0.069  Sum_probs=191.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +...+..+...+.+.|++++|...|+++.+.. +.+..++..+..++...|++++|...++++.+.. +.+..++..+..
T Consensus        63 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~  140 (368)
T 1fch_A           63 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAV  140 (368)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            45678888999999999999999999998873 4567888899999999999999999999998874 336788888999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCc-----------------------------------------cch---hHHHH
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAF-----------------------------------------CEI---NIVAY  130 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----------------------------------------~~~---~~~~~  130 (259)
                      ++...|++++|...++++..........                                         ..|   +..++
T Consensus       141 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~  220 (368)
T 1fch_A          141 SFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQ  220 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHH
Confidence            9999999999999998887653221100                                         001   35778


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 036731          131 GCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRK  210 (259)
Q Consensus       131 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  210 (259)
                      ..+...+...|++++|...+++..+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+...+.+.
T Consensus       221 ~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~  298 (368)
T 1fch_A          221 CGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINL  298 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHC
Confidence            888889999999999999999888764 2356788888889999999999999999888763 34577888888999999


Q ss_pred             CCHHHHHHHHHHHhhCCCcc----------chHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          211 NETSKVIELLRSMDKRNVMP----------YASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       211 ~~~~~a~~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      |++++|...++++.+.....          ...++..+..+|...|+.++|..++++
T Consensus       299 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          299 GAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             TCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence            99999999998877542111          157888899999999999888887653

>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=3.8e-18  Score=129.88  Aligned_cols=235  Identities=10%  Similarity=-0.040  Sum_probs=199.2

Q ss_pred             ccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHH
Q 036731           12 CKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNV   91 (259)
Q Consensus        12 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   91 (259)
                      .+.++..+..+...+...|++++|.++|+++.+.. +.+...+..++..+...|++++|..+++++.+.. +.+...+..
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~   95 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFA   95 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHH
Confidence            34567778889999999999999999999998763 4466777788889999999999999999999874 336778899


Q ss_pred             HHHHHHHcC-CHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 036731           92 IMDELCKNR-KMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIH  170 (259)
Q Consensus        92 l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  170 (259)
                      +...+...| ++++|...|++..+..  |+     +...+..+...+...|++++|...+++..+.... +...+..+..
T Consensus        96 l~~~~~~~~~~~~~A~~~~~~a~~~~--~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~  167 (330)
T 3hym_B           96 VGCYYLMVGHKNEHARRYLSKATTLE--KT-----YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGL  167 (330)
T ss_dssp             HHHHHHHSCSCHHHHHHHHHHHHTTC--TT-----CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHH
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHhC--Cc-----cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHH
Confidence            999999999 9999999999998754  32     3478999999999999999999999999887432 5667788999


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC--------CccchHHHHHHHHHH
Q 036731          171 ALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN--------VMPYASILSIIVDLL  242 (259)
Q Consensus       171 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~  242 (259)
                      .+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+..        .+....++..+..++
T Consensus       168 ~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~  246 (330)
T 3hym_B          168 EYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVC  246 (330)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHH
Confidence            9999999999999999998773 4567889999999999999999999999987531        133467899999999


Q ss_pred             HHhcccCCcchhhhc
Q 036731          243 VKNEISLNSIPQFNR  257 (259)
Q Consensus       243 ~~~g~~~~a~~~~~~  257 (259)
                      ...|++++|++.|++
T Consensus       247 ~~~g~~~~A~~~~~~  261 (330)
T 3hym_B          247 RKLKKYAEALDYHRQ  261 (330)
T ss_dssp             HHTTCHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHH
Confidence            999999999998875

>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=4.6e-18  Score=129.43  Aligned_cols=233  Identities=11%  Similarity=-0.045  Sum_probs=189.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcC-ChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN-DGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      +...+..++..+.+.|++++|..+++++.+.. +.+...+..+...+...| ++++|...+++..+.. +.+...|..+.
T Consensus        55 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~  132 (330)
T 3hym_B           55 HASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYG  132 (330)
T ss_dssp             CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHH
T ss_pred             ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHH
Confidence            45567778888889999999999999988763 446778888888999999 8999999999988764 33567788899


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC  173 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (259)
                      .++...|++++|...+++..+....       +...+..+...+...|++++|...+++..+.. +.+...+..+...+.
T Consensus       133 ~~~~~~~~~~~A~~~~~~a~~~~~~-------~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~  204 (330)
T 3hym_B          133 HSFAVESEHDQAMAAYFTAAQLMKG-------CHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAF  204 (330)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHTTT-------CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhccc-------cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            9999999999999999988875432       23677778899999999999999999988764 335678888889999


Q ss_pred             hcCChhHHHHHHHHHHhcC--------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHh
Q 036731          174 NDEQMDKAHDLFLDMEVKG--------VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN  245 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~--------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  245 (259)
                      ..|++++|...+++..+..        .+.+..++..+...+...|++++|...+++..+.. +.+...+..+..++...
T Consensus       205 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~  283 (330)
T 3hym_B          205 QNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLM  283 (330)
T ss_dssp             HTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHH
T ss_pred             HcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHh
Confidence            9999999999998887641        13335678888899999999999999999988764 33677888899999999


Q ss_pred             cccCCcchhhhcc
Q 036731          246 EISLNSIPQFNRQ  258 (259)
Q Consensus       246 g~~~~a~~~~~~~  258 (259)
                      |++++|.+.|++.
T Consensus       284 g~~~~A~~~~~~a  296 (330)
T 3hym_B          284 GNFENAVDYFHTA  296 (330)
T ss_dssp             TCHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHH
Confidence            9999999888763

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.83  E-value=2e-18  Score=133.66  Aligned_cols=244  Identities=7%  Similarity=-0.094  Sum_probs=193.0

Q ss_pred             Ccccccccc---cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731            4 GNREFGVVC---KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus         4 a~~~~~~~~---~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      |.+.|+..+   +.+..+|..+...+.+.|++++|...|+++.+.. +.+..++..+..++...|++++|...++++.+.
T Consensus        84 A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  162 (365)
T 4eqf_A           84 TILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQDACEALKNWIKQ  162 (365)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHHHHHHHHHHHHHh
Confidence            344444443   3478899999999999999999999999998863 446889999999999999999999999999876


Q ss_pred             CCCCchhh----------HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHH
Q 036731           81 GLQSDVVT----------FNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELS  150 (259)
Q Consensus        81 ~~~~~~~~----------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  150 (259)
                      ... +...          +..+...+...|++++|...++++.+.....     .+..++..+...+...|++++|...+
T Consensus       163 ~p~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~  236 (365)
T 4eqf_A          163 NPK-YKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDM-----IDPDLQTGLGVLFHLSGEFNRAIDAF  236 (365)
T ss_dssp             CHH-HHCC-------------------CCHHHHHHHHHHHHHHHHSCSS-----CCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             Ccc-chHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCc-----cCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            321 2222          3345788999999999999999998764321     13578999999999999999999999


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc-
Q 036731          151 QSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVM-  229 (259)
Q Consensus       151 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-  229 (259)
                      ++..+.. +.+..+|..+..++...|++++|...++++.+.. +.+..++..+..+|...|++++|...++++.+.... 
T Consensus       237 ~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~  314 (365)
T 4eqf_A          237 NAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKS  314 (365)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccc
Confidence            9998874 3367899999999999999999999999998873 345788999999999999999999999998753211 


Q ss_pred             ----------cchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          230 ----------PYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       230 ----------~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                                .+..++..+..++...|+.+.+.++.+
T Consensus       315 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  351 (365)
T 4eqf_A          315 RNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANL  351 (365)
T ss_dssp             ------------CHHHHHHHHHHHHHTCHHHHHHHHT
T ss_pred             CCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence                      136789999999999999877766554

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.83  E-value=4e-18  Score=122.43  Aligned_cols=199  Identities=10%  Similarity=-0.017  Sum_probs=151.0

Q ss_pred             CCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhH
Q 036731           48 NPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINI  127 (259)
Q Consensus        48 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  127 (259)
                      +++...+..+...+...|++++|...|++..+.. +.+...+..+..++.+.|++++|+..+++..+..  |+     +.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--P~-----~~   73 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART--PR-----YL   73 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CC-----cH
Confidence            4566677777778888888888888888877663 2356777778888888888888888888877643  33     45


Q ss_pred             HHHHHHHHHHHhc-----------CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc
Q 036731          128 VAYGCLIDGLCKI-----------GKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPN  196 (259)
Q Consensus       128 ~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~  196 (259)
                      ..+..+..++...           |++++|...+++..+.... +...+..+..++...|++++|...|++..+..  .+
T Consensus        74 ~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~  150 (217)
T 2pl2_A           74 GGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DT  150 (217)
T ss_dssp             HHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CC
T ss_pred             HHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cc
Confidence            7777888888888           9999999999999887432 56788889999999999999999999999887  68


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          197 CVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       197 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      ...+..+..++...|++++|...+++..+.. +.+...+..+..++...|++++|++.|++.
T Consensus       151 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          151 PEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            8899999999999999999999999998764 336778888999999999999999999875

>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=99.83  E-value=3.9e-18  Score=129.65  Aligned_cols=239  Identities=10%  Similarity=-0.067  Sum_probs=185.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +...|..+...+...|++++|..+|+++.+.. +.+...+..+..++...|++++|...++++.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            45566677777888888888888888877653 3366677777778888888888888888877763 335667777778


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCC-----------------------c-------------------cchhHHHHHH
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDA-----------------------F-------------------CEINIVAYGC  132 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------------------~-------------------~~~~~~~~~~  132 (259)
                      .+...|++++|.+.++++.+.......                       .                   .+.+..++..
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  177 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHAS  177 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHH
Confidence            888888888888877776653211000                       0                   1124678888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC
Q 036731          133 LIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNE  212 (259)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  212 (259)
                      +...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+...+...|+
T Consensus       178 la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~  255 (327)
T 3cv0_A          178 LGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQ  255 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcc
Confidence            9999999999999999999998864 2357788999999999999999999999988763 3467889999999999999


Q ss_pred             HHHHHHHHHHHhhCCCcc-----------chHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          213 TSKVIELLRSMDKRNVMP-----------YASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       213 ~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      +++|.+.++++.+.....           +...+..+..++...|+.++|..++++
T Consensus       256 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  311 (327)
T 3cv0_A          256 YDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQ  311 (327)
T ss_dssp             HHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            999999999987653221           477888999999999999999888875

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.82  E-value=2.8e-18  Score=128.62  Aligned_cols=221  Identities=10%  Similarity=0.072  Sum_probs=175.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCC-chhhHHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQS-DVVTFNVIMDE   95 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~   95 (259)
                      ...-.+..+|...|+++.|+..++.   . -+|+..++..+...+...++.++|++.++++...+..| +...+..+..+
T Consensus        35 e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~  110 (291)
T 3mkr_A           35 ERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASI  110 (291)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHH
Confidence            4556678899999999999876644   2 35677888889999999999999999999998876545 45566777788


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH---HHHHHHH
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTY---NITIHAL  172 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~li~~~  172 (259)
                      +...|++++|++.+++       |+     +...+..++..+.+.|++++|...++++.+..  |+....   ..++..+
T Consensus       111 ~~~~g~~~~Al~~l~~-------~~-----~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~  176 (291)
T 3mkr_A          111 YFYDQNPDAALRTLHQ-------GD-----SLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLA  176 (291)
T ss_dssp             HHHTTCHHHHHHHHTT-------CC-----SHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHhC-------CC-----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHH
Confidence            9999999999999986       32     45789999999999999999999999998864  443211   1233444


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCC-c
Q 036731          173 CNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLN-S  251 (259)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a  251 (259)
                      ...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|...+++..+.. +-+..++..++..+...|+.++ +
T Consensus       177 ~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa  254 (291)
T 3mkr_A          177 AGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVT  254 (291)
T ss_dssp             HCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHH
T ss_pred             hCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHH
Confidence            4568999999999999887 35678889999999999999999999999988764 3467788889999999999876 4


Q ss_pred             chhhhc
Q 036731          252 IPQFNR  257 (259)
Q Consensus       252 ~~~~~~  257 (259)
                      .+++++
T Consensus       255 ~~~~~~  260 (291)
T 3mkr_A          255 NRYLSQ  260 (291)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            566654

>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=99.81  E-value=8.2e-17  Score=118.06  Aligned_cols=203  Identities=12%  Similarity=0.022  Sum_probs=176.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      +..|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.++++.+... .+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHH
Confidence            6778889999999999999999999998763 44678889999999999999999999999988743 367888999999


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND  175 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  175 (259)
                      +...|++++|.+.++++.+.+..|.     +...+..+..++...|++++|...+++..+... .+...+..+...+...
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~-----~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~  188 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPE-----RSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR-NQPSVALEMADLLYKE  188 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTT-----HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHT
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcc-----cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHc
Confidence            9999999999999999887333343     568899999999999999999999999988643 3577888999999999


Q ss_pred             CChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          176 EQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       176 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      |++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+..
T Consensus       189 g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          189 REYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             TCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            99999999999998763 4567788888999999999999999999998763

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.81  E-value=5.7e-17  Score=124.69  Aligned_cols=233  Identities=11%  Similarity=0.034  Sum_probs=193.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      |+..+..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            46778889999999999999999999998763 4467889999999999999999999999999874 336788999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCC-CCccchhHHHHHHH------------HHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRP-DAFCEINIVAYGCL------------IDGLCKIGKLKNARELSQSLTRAGLMPN  161 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~  161 (259)
                      ++...|++++|...+++..+..... +     +...+..+            ...+...|++++|..+++++.+... .+
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~  153 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQE-----EKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCV-WD  153 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TC
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccC-----hHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-Cc
Confidence            9999999999999999998753200 2     34555555            6889999999999999999988743 36


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHH-----
Q 036731          162 VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILS-----  236 (259)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----  236 (259)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...+++..+.... +...+.     
T Consensus       154 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~  231 (359)
T 3ieg_A          154 AELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQV  231 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHH
Confidence            7788999999999999999999999998873 457788999999999999999999999998875422 233322     


Q ss_pred             -------HHHHHHHHhcccCCcchhhhc
Q 036731          237 -------IIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       237 -------~l~~~~~~~g~~~~a~~~~~~  257 (259)
                             .+...+.+.|++++|++.|++
T Consensus       232 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~  259 (359)
T 3ieg_A          232 KKLNKLIESAEELIRDGRYTDATSKYES  259 (359)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                   236678999999999988875

>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=99.81  E-value=9e-18  Score=127.67  Aligned_cols=202  Identities=9%  Similarity=-0.059  Sum_probs=161.6

Q ss_pred             chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCc-------
Q 036731           50 NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAF-------  122 (259)
Q Consensus        50 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------  122 (259)
                      +...+..+...+...|++++|..+++++.+... .+...+..+..++...|++++|...++++.+..  |+..       
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la   96 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALA   96 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cCCHHHHHHHH
Confidence            455677888899999999999999999988743 367888899999999999999999999988753  3321       


Q ss_pred             ----------------------cchhHHHHHHH--------------HH-HHHhcCChHHHHHHHHHHHHcCCCCChhhH
Q 036731          123 ----------------------CEINIVAYGCL--------------ID-GLCKIGKLKNARELSQSLTRAGLMPNVVTY  165 (259)
Q Consensus       123 ----------------------~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  165 (259)
                                            .+.+...+..+              .. .+...|++++|...++++.+... .+...+
T Consensus        97 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~  175 (327)
T 3cv0_A           97 VSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNP-NDAQLH  175 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHST-TCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCC-CCHHHH
Confidence                                  00011111111              11 36677889999999999988743 367889


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHh
Q 036731          166 NITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN  245 (259)
Q Consensus       166 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  245 (259)
                      ..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+..++...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHh
Confidence            999999999999999999999998773 4467889999999999999999999999988764 34677889999999999


Q ss_pred             cccCCcchhhhc
Q 036731          246 EISLNSIPQFNR  257 (259)
Q Consensus       246 g~~~~a~~~~~~  257 (259)
                      |++++|++.|++
T Consensus       254 g~~~~A~~~~~~  265 (327)
T 3cv0_A          254 SQYDLAAKQLVR  265 (327)
T ss_dssp             TCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHH
Confidence            999999998875

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.81  E-value=1.8e-17  Score=119.05  Aligned_cols=200  Identities=11%  Similarity=-0.048  Sum_probs=163.0

Q ss_pred             cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHH
Q 036731           13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVI   92 (259)
Q Consensus        13 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   92 (259)
                      ++++..+..+...+.+.|++++|...|++..+.. +.+...+..+...+.+.|++++|+..+++..+... .+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTP-RYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHH
Confidence            4678889999999999999999999999998763 45778899999999999999999999999998743 367788899


Q ss_pred             HHHHHHc-----------CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 036731           93 MDELCKN-----------RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN  161 (259)
Q Consensus        93 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  161 (259)
                      ..++...           |++++|+..+++..+.  .|+     +...+..+..++...|++++|...|++..+..  .+
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~-----~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~  150 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPR-----YAPLHLQRGLVYALLGERDKAEASLKQALALE--DT  150 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTT-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CC
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--Ccc-----cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cc
Confidence            9999999           9999999999999875  344     56889999999999999999999999999887  58


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 036731          162 VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMD  224 (259)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (259)
                      ...+..+..++...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..
T Consensus       151 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          151 PEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            8899999999999999999999999998873 4467788899999999999999999998764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.81  E-value=1.5e-17  Score=122.26  Aligned_cols=223  Identities=8%  Similarity=0.037  Sum_probs=162.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCC--Cc----hhh
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ--SD----VVT   88 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~   88 (259)
                      ....|..+...+...|++++|...|+++.+..  .+...+..+..++...|++++|...+++..+....  ++    ..+
T Consensus         4 ~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            4 MADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            35678889999999999999999999999886  78899999999999999999999999998865321  12    578


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 036731           89 FNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNIT  168 (259)
Q Consensus        89 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  168 (259)
                      +..+..++...|++++|...|++..+..  |+             ...+...|++++|...++.+..... .+...+..+
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~-------------~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~  145 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTEH--RT-------------ADILTKLRNAEKELKKAEAEAYVNP-EKAEEARLE  145 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CC-------------HHHHHHHHHHHHHHHHHHHHHHCCH-HHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcC--ch-------------hHHHHHHhHHHHHHHHHHHHHHcCc-chHHHHHHH
Confidence            8899999999999999999999998743  21             1234555666777777776665431 234456666


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhccc
Q 036731          169 IHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEIS  248 (259)
Q Consensus       169 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  248 (259)
                      ...+...|++++|...+++..+.. +.+..++..+...+...|++++|...+++..+.. +.+...+..+..++...|++
T Consensus       146 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~  223 (258)
T 3uq3_A          146 GKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEY  223 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhH
Confidence            666667777777777777666552 3345666666667777777777777777666543 23455666666677777777


Q ss_pred             CCcchhhhc
Q 036731          249 LNSIPQFNR  257 (259)
Q Consensus       249 ~~a~~~~~~  257 (259)
                      ++|.+.|++
T Consensus       224 ~~A~~~~~~  232 (258)
T 3uq3_A          224 ASALETLDA  232 (258)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            766666653

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.80  E-value=3e-16  Score=112.85  Aligned_cols=214  Identities=11%  Similarity=0.000  Sum_probs=179.6

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      .++..|..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~   83 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            356788999999999999999999999998763 4467889999999999999999999999998874 33677889999


Q ss_pred             HHHHHc-CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 036731           94 DELCKN-RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHAL  172 (259)
Q Consensus        94 ~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  172 (259)
                      ..+... |++++|...++++.+.+..|.     +...+..+..++...|++++|...++++.+... .+...+..+...+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~  157 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALADPTYPT-----PYIANLNKGICSAKQGQFGLAEAYLKRSLAAQP-QFPPAFKELARTK  157 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTSTTCSC-----HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHH
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcCcCCcc-----hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCchHHHHHHHHH
Confidence            999999 999999999999988333333     568899999999999999999999999988642 3577888999999


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHH
Q 036731          173 CNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSI  237 (259)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  237 (259)
                      ...|++++|...++++.+.....+...+..+...+...|+.+.+..+++.+.+.  .|+......
T Consensus       158 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~  220 (225)
T 2vq2_A          158 MLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQT  220 (225)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHH
Confidence            999999999999999987632146777888888889999999999999998765  344444433

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.80  E-value=1.3e-19  Score=139.93  Aligned_cols=214  Identities=10%  Similarity=0.083  Sum_probs=88.1

Q ss_pred             CCCCcccccccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731            1 MANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus         1 ~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      +++|.+.+++...|  .+|..+..++.+.|++++|++.|.+.      +|..+|..++..+...|++++|..+++..++.
T Consensus        19 ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~   90 (449)
T 1b89_A           19 LDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK   90 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            46788888887554  58999999999999999999999653      57789999999999999999999988777664


Q ss_pred             CCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 036731           81 GLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP  160 (259)
Q Consensus        81 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (259)
                        .+++.+.+.++.+|.+.|+++++.++++       .|      +..+|..+...|...|.+++|...|..+       
T Consensus        91 --~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~p------n~~a~~~IGd~~~~~g~yeeA~~~Y~~a-------  148 (449)
T 1b89_A           91 --ARESYVETELIFALAKTNRLAELEEFIN-------GP------NNAHIQQVGDRCYDEKMYDAAKLLYNNV-------  148 (449)
T ss_dssp             --------------------CHHHHTTTTT-------CC----------------------CTTTHHHHHHHT-------
T ss_pred             --CccchhHHHHHHHHHHhCCHHHHHHHHc-------CC------cHHHHHHHHHHHHHcCCHHHHHHHHHHh-------
Confidence              4567888999999999999999888774       23      3479999999999999999999999976       


Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHH
Q 036731          161 NVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVD  240 (259)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  240 (259)
                        ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......+.   ..|  .-...++.
T Consensus       149 --~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~---~~a--d~l~~lv~  215 (449)
T 1b89_A          149 --SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHA--DELEELIN  215 (449)
T ss_dssp             --TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT---TCH--HHHHHHHH
T ss_pred             --hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH---hCH--hhHHHHHH
Confidence              47999999999999999999999988      268899999999999999999965544322   233  34557888


Q ss_pred             HHHHhcccCCcchhhhc
Q 036731          241 LLVKNEISLNSIPQFNR  257 (259)
Q Consensus       241 ~~~~~g~~~~a~~~~~~  257 (259)
                      .|.+.|.+++|+.+++.
T Consensus       216 ~Yek~G~~eEai~lLe~  232 (449)
T 1b89_A          216 YYQDRGYFEELITMLEA  232 (449)
T ss_dssp             HHHHTTCHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHH
Confidence            99999999999888764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.80  E-value=9.7e-18  Score=135.25  Aligned_cols=249  Identities=8%  Similarity=-0.105  Sum_probs=168.8

Q ss_pred             Ccccccccc--cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcC
Q 036731            4 GNREFGVVC--KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG   81 (259)
Q Consensus         4 a~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~   81 (259)
                      |.+.|+..+  .|++.+|..+..++.+.|++++|...++++.+.+ +.+..++..+..++...|++++|...|+++...+
T Consensus        25 A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  103 (514)
T 2gw1_A           25 AIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADAMFDLSVLSLNG  103 (514)
T ss_dssp             HHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            344444443  3788999999999999999999999999998764 4466788899999999999999999999887664


Q ss_pred             CCC-----------------------------------------------------------------------------
Q 036731           82 LQS-----------------------------------------------------------------------------   84 (259)
Q Consensus        82 ~~~-----------------------------------------------------------------------------   84 (259)
                      ...                                                                             
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (514)
T 2gw1_A          104 DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDES  183 (514)
T ss_dssp             SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSS
T ss_pred             CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCC
Confidence            211                                                                             


Q ss_pred             -chhhHHHHHHHHHH---cCCHHHHHHHHHHHHh-----CCCCCCCc--cchhHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 036731           85 -DVVTFNVIMDELCK---NRKMDEATRLLDLMIQ-----GGVRPDAF--CEINIVAYGCLIDGLCKIGKLKNARELSQSL  153 (259)
Q Consensus        85 -~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  153 (259)
                       +...+......+..   .|++++|...|+++.+     ....|+..  .+.+..++..+...+...|++++|...++++
T Consensus       184 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  263 (514)
T 2gw1_A          184 NEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKA  263 (514)
T ss_dssp             CHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence             02222233333333   7899999999999887     42233221  1235677888888888889999999888888


Q ss_pred             HHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchH
Q 036731          154 TRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYAS  233 (259)
Q Consensus       154 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  233 (259)
                      .+...  +...+..+..++...|++++|...++++.... +.+...+..+...+...|++++|...++++.+... .+..
T Consensus       264 l~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~  339 (514)
T 2gw1_A          264 IELFP--RVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDP-ENIF  339 (514)
T ss_dssp             HHHCC--CHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCS-SCSH
T ss_pred             HhhCc--cHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCh-hhHH
Confidence            77543  35666666677777777777777777666542 22445566666666666666666666666655432 2444


Q ss_pred             HHHHHHHHHHHhcccCCcchhhhc
Q 036731          234 ILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       234 ~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      .+..+...+...|++++|+..|++
T Consensus       340 ~~~~l~~~~~~~~~~~~A~~~~~~  363 (514)
T 2gw1_A          340 PYIQLACLAYRENKFDDCETLFSE  363 (514)
T ss_dssp             HHHHHHHHTTTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHH
Confidence            555566666666666666655543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.79  E-value=2.4e-16  Score=121.18  Aligned_cols=229  Identities=13%  Similarity=0.072  Sum_probs=135.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCC----chHhHHHH------------HHHHhhcCChhHHHHHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINP----NVVTYNSL------------IHGFCYANDGNEAEYLFIEMM   78 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l------------i~~~~~~~~~~~a~~~~~~~~   78 (259)
                      +...|..+...+.+.|++++|...|+++.+.  .|    +...+..+            ...+...|++++|...++++.
T Consensus        70 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~  147 (359)
T 3ieg_A           70 FTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKIL  147 (359)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            3445555555555555555555555555543  22    22333322            344555556666666665555


Q ss_pred             HcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 036731           79 DRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGL  158 (259)
Q Consensus        79 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  158 (259)
                      +.. +.+...+..+..++...|++++|...++++.+..  |+     +..++..+...+...|++++|...+++..+...
T Consensus       148 ~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~-----~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  219 (359)
T 3ieg_A          148 EVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK--SD-----NTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ  219 (359)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--SC-----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc
Confidence            542 2245555666666666666666666666665542  22     346666777777777777777777777665432


Q ss_pred             CCChhhHH------------HHHHHHHhcCChhHHHHHHHHHHhcCCCCc-H----HHHHHHHHHHHhcCCHHHHHHHHH
Q 036731          159 MPNVVTYN------------ITIHALCNDEQMDKAHDLFLDMEVKGVAPN-C----VIFTTLMPSFIRKNETSKVIELLR  221 (259)
Q Consensus       159 ~~~~~~~~------------~li~~~~~~~~~~~a~~~~~~~~~~~~~p~-~----~~~~~l~~~~~~~~~~~~a~~~~~  221 (259)
                      . +...+.            .+...+...|++++|...++++.+..  |+ .    ..+..+...+...|++++|...++
T Consensus       220 ~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  296 (359)
T 3ieg_A          220 D-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRICS  296 (359)
T ss_dssp             T-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             c-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            1 222222            12445667777777777777776652  22 2    224445667777788888888888


Q ss_pred             HHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          222 SMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       222 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      +..+.. +.+..++..+..++...|++++|.+.|++
T Consensus       297 ~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~  331 (359)
T 3ieg_A          297 EVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEA  331 (359)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            777653 33566777777788888888887777764

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.79  E-value=3.3e-17  Score=122.78  Aligned_cols=230  Identities=12%  Similarity=0.056  Sum_probs=182.0

Q ss_pred             ccccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCch
Q 036731            8 FGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDV   86 (259)
Q Consensus         8 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~   86 (259)
                      ++....|+..++..+...+...++.++|++.++++...+..| +...+..+...+...|++++|++.+++      +.+.
T Consensus        57 ~~~~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~  130 (291)
T 3mkr_A           57 IKPSSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSL  130 (291)
T ss_dssp             SCTTSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSH
T ss_pred             hcccCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCH
Confidence            344456678889999999999999999999999998876545 556667777899999999999999987      4577


Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHH
Q 036731           87 VTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYN  166 (259)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  166 (259)
                      ..+..++.++.+.|++++|.+.++++.+..  |+.   ........++..+...|++++|..+|+++.+.. +.+...++
T Consensus       131 ~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~---~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~  204 (291)
T 3mkr_A          131 ECMAMTVQILLKLDRLDLARKELKKMQDQD--EDA---TLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLN  204 (291)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTC---HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCc---HHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHH
Confidence            889999999999999999999999998763  442   011112233444555689999999999999873 45788899


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH-HHHHHHHHhhCCCccchHHHHHHHHHHHHh
Q 036731          167 ITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSK-VIELLRSMDKRNVMPYASILSIIVDLLVKN  245 (259)
Q Consensus       167 ~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  245 (259)
                      .+..++...|++++|...+++..+.. +-+..++..++..+...|+.++ +.++++++.+.  .|+...   +.+...+.
T Consensus       205 ~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~--~P~~~~---~~d~~~~~  278 (291)
T 3mkr_A          205 GQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA--HRSHPF---IKEYRAKE  278 (291)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHH---HHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh--CCCChH---HHHHHHHH
Confidence            99999999999999999999988773 4477889999999999999976 57899998876  344433   34457777


Q ss_pred             cccCCcchhh
Q 036731          246 EISLNSIPQF  255 (259)
Q Consensus       246 g~~~~a~~~~  255 (259)
                      +.++++..-|
T Consensus       279 ~~fd~~~~~~  288 (291)
T 3mkr_A          279 NDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            7777766554

>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=99.79  E-value=1.3e-15  Score=113.13  Aligned_cols=219  Identities=9%  Similarity=-0.049  Sum_probs=192.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhh----cCChhHHHHHHHHHHHcCCCCchhhHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCY----ANDGNEAEYLFIEMMDRGLQSDVVTFN   90 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   90 (259)
                      ++.++..+...+...|++++|.+.|++..+.   -+...+..+...+..    .+++++|...|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            6778888999999999999999999999884   356778888899999    999999999999999875   678888


Q ss_pred             HHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCh
Q 036731           91 VIMDELCK----NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK----IGKLKNARELSQSLTRAGLMPNV  162 (259)
Q Consensus        91 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~  162 (259)
                      .+...|..    .+++++|+..|++..+.+         +...+..+...|..    .+++++|...|++..+.+   +.
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---------~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~  146 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---------YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DG  146 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---------CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---------CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cH
Confidence            89999999    999999999999998864         23789999999999    999999999999999875   56


Q ss_pred             hhHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCccchHH
Q 036731          163 VTYNITIHALCN----DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR----KNETSKVIELLRSMDKRNVMPYASI  234 (259)
Q Consensus       163 ~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  234 (259)
                      ..+..+...+..    .+++++|...+++..+.+   +...+..+...|..    .+++++|...+++..+.+.   ...
T Consensus       147 ~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~---~~a  220 (273)
T 1ouv_A          147 DGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN---GGG  220 (273)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC---HHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC---HHH
Confidence            677888888887    899999999999998874   46778888899999    9999999999999988753   567


Q ss_pred             HHHHHHHHHH----hcccCCcchhhhc
Q 036731          235 LSIIVDLLVK----NEISLNSIPQFNR  257 (259)
Q Consensus       235 ~~~l~~~~~~----~g~~~~a~~~~~~  257 (259)
                      +..+...|..    .++.++|++.|++
T Consensus       221 ~~~l~~~~~~g~~~~~~~~~A~~~~~~  247 (273)
T 1ouv_A          221 CFNLGAMQYNGEGVTRNEKQAIENFKK  247 (273)
T ss_dssp             HHHHHHHHHTTSSSSCCSTTHHHHHHH
T ss_pred             HHHHHHHHHcCCCcccCHHHHHHHHHH
Confidence            7888889998    8999999998875

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.78  E-value=4.5e-17  Score=131.37  Aligned_cols=231  Identities=13%  Similarity=-0.000  Sum_probs=197.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +..+|..+...+...|++++|...++++.+..  |+...+..+...+...|++++|...++.+.... +.+...+..+..
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  312 (514)
T 2gw1_A          236 LAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQ  312 (514)
T ss_dssp             HHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHH
Confidence            46778889999999999999999999998874  338888999999999999999999999998764 336778899999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      ++...|++++|...+++..+....       +..++..+...+...|++++|...++++.+.. +.+..++..+...+..
T Consensus       313 ~~~~~~~~~~A~~~~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~  384 (514)
T 2gw1_A          313 MNFILQNYDQAGKDFDKAKELDPE-------NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTD  384 (514)
T ss_dssp             HHHHTTCTTHHHHHHHHHHHTCSS-------CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhChh-------hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHH
Confidence            999999999999999999876432       34789999999999999999999999998764 2356788899999999


Q ss_pred             cCChhHHHHHHHHHHhcCC-CCc----HHHHHHHHHHHHh---cCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhc
Q 036731          175 DEQMDKAHDLFLDMEVKGV-APN----CVIFTTLMPSFIR---KNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNE  246 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  246 (259)
                      .|++++|...++++..... .++    ...+..+...+..   .|++++|...++++.+.. +.+..++..+..+|.+.|
T Consensus       385 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g  463 (514)
T 2gw1_A          385 KNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQE  463 (514)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhc
Confidence            9999999999999876521 111    3378889999999   999999999999998764 346778889999999999


Q ss_pred             ccCCcchhhhc
Q 036731          247 ISLNSIPQFNR  257 (259)
Q Consensus       247 ~~~~a~~~~~~  257 (259)
                      ++++|.+.|++
T Consensus       464 ~~~~A~~~~~~  474 (514)
T 2gw1_A          464 DIDEAITLFEE  474 (514)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            99999998875

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.77  E-value=1.4e-16  Score=116.01  Aligned_cols=203  Identities=16%  Similarity=0.128  Sum_probs=158.4

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      ....+|..+...+.+.|++++|...|+++.+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHH
Confidence            456678888899999999999999999998763 4467888999999999999999999999998874 33678888999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC  173 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (259)
                      ..+...|++++|...++++.+..  |+     +...+..+...+...|++++|...++++.+... .+...+..+...+.
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~--~~-----~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~  170 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG--ME-----NGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE-NDTEARFQFGMCLA  170 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT--CC-----SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHH
Confidence            99999999999999999998754  32     457899999999999999999999999988643 36778889999999


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          174 NDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      ..|++++|...++++.+.. +.+..++..+...+...|++++|.+.++++.+..
T Consensus       171 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          171 NEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            9999999999999998763 4467889999999999999999999999998764

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.77  E-value=1.6e-16  Score=117.80  Aligned_cols=232  Identities=10%  Similarity=0.007  Sum_probs=184.8

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc--hhhHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD--VVTFNVIM   93 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~   93 (259)
                      ...+......+.+.|++++|...|++..+.. +.+...+..+..++...|++++|+..+++..+.+..|+  ...|..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            4456667888999999999999999998863 33566889999999999999999999999988432222  23488899


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC  173 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (259)
                      .++...|++++|...|++..+..  |+     +..++..+...|...|++++|...+++..+.. +.+...+..+...+.
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~--~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~  153 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRD--TT-----RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYY  153 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS--TT-----CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC--cc-----cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHH
Confidence            99999999999999999998753  32     34899999999999999999999999988763 235666777773445


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC---HHHHHHHHHHHhhCC-Cccc------hHHHHHHHHHHH
Q 036731          174 NDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNE---TSKVIELLRSMDKRN-VMPY------ASILSIIVDLLV  243 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~  243 (259)
                      ..+++++|...++++.+.. +.+...+..+...+...|+   +++|...+++..+.. -.|+      ...+..+...|.
T Consensus       154 ~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  232 (272)
T 3u4t_A          154 YNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYT  232 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHH
Confidence            5569999999999998873 3346778888888888888   888888888876531 1122      267888999999


Q ss_pred             HhcccCCcchhhhc
Q 036731          244 KNEISLNSIPQFNR  257 (259)
Q Consensus       244 ~~g~~~~a~~~~~~  257 (259)
                      ..|++++|++.|++
T Consensus       233 ~~~~~~~A~~~~~~  246 (272)
T 3u4t_A          233 INRDKVKADAAWKN  246 (272)
T ss_dssp             HTTCHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHH
Confidence            99999999999875

>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=99.76  E-value=5.6e-16  Score=120.08  Aligned_cols=231  Identities=10%  Similarity=0.038  Sum_probs=193.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCC-hhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAND-GNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      +...|+.+...+.+.|++++|+..++++.+.. +-+...|+.+..++...|+ +++|+..|++....... +...|..+.
T Consensus        96 ~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g  173 (382)
T 2h6f_A           96 FRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHH
Confidence            45678889999999999999999999999863 4467889999999999997 99999999999987544 788999999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC  173 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (259)
                      .++...|++++|+..|+++.+..  |+     +..+|..+..++...|++++|+..++++.+.... +...|+.+..++.
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ld--P~-----~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~  245 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQD--AK-----NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVIS  245 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC--cc-----CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            99999999999999999999853  43     5689999999999999999999999999987644 6788999999999


Q ss_pred             h-cCChhHH-----HHHHHHHHhcCCCCcHHHHHHHHHHHHhcC--CHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHh
Q 036731          174 N-DEQMDKA-----HDLFLDMEVKGVAPNCVIFTTLMPSFIRKN--ETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN  245 (259)
Q Consensus       174 ~-~~~~~~a-----~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  245 (259)
                      . .|..++|     +..+++..... +-+...|..+...+...|  ++++|.+.+.++ +. .+.+...+..+..+|.+.
T Consensus       246 ~l~~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~  322 (382)
T 2h6f_A          246 NTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDM  322 (382)
T ss_dssp             HTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHH
T ss_pred             HhcCcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHH
Confidence            8 6665887     48888888763 335678888888888888  689999999888 43 244667888899999887


Q ss_pred             c--------c-cCCcchhhhcc
Q 036731          246 E--------I-SLNSIPQFNRQ  258 (259)
Q Consensus       246 g--------~-~~~a~~~~~~~  258 (259)
                      |        + .++|+++|+++
T Consensus       323 ~~~~~~~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          323 LENQCDNKEDILNKALELCEIL  344 (382)
T ss_dssp             HHTTCSSHHHHHHHHHHHHHHH
T ss_pred             hcccccchHHHHHHHHHHHHHH
Confidence            5        2 47888888764

>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=99.75  E-value=7.9e-16  Score=124.84  Aligned_cols=229  Identities=13%  Similarity=0.004  Sum_probs=191.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDEL   96 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   96 (259)
                      .+|..+...+...|++++|...++++.+.  .|+...+..+...+...|++++|...++++.+... .+..++..+..++
T Consensus       244 ~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~  320 (537)
T 3fp2_A          244 LALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNP-EYPPTYYHRGQMY  320 (537)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCC-CCHHHHHHHHHHH
Confidence            35777778889999999999999999886  45688899999999999999999999999988743 3678899999999


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 036731           97 CKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDE  176 (259)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  176 (259)
                      ...|++++|...+++..+..  |+     +..++..+..++...|++++|...++++.+.. +.+...+..+...+...|
T Consensus       321 ~~~~~~~~A~~~~~~a~~~~--~~-----~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  392 (537)
T 3fp2_A          321 FILQDYKNAKEDFQKAQSLN--PE-----NVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRG  392 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--TT-----CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTT
T ss_pred             HhcCCHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhC
Confidence            99999999999999998754  33     34789999999999999999999999998874 335678899999999999


Q ss_pred             ChhHHHHHHHHHHhcC-----CCCcHHHHHHHHHHHHhc----------CCHHHHHHHHHHHhhCCCccchHHHHHHHHH
Q 036731          177 QMDKAHDLFLDMEVKG-----VAPNCVIFTTLMPSFIRK----------NETSKVIELLRSMDKRNVMPYASILSIIVDL  241 (259)
Q Consensus       177 ~~~~a~~~~~~~~~~~-----~~p~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  241 (259)
                      ++++|...++++.+..     .......+......+...          |++++|...+++..+.. +.+...+..+..+
T Consensus       393 ~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~  471 (537)
T 3fp2_A          393 DFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQL  471 (537)
T ss_dssp             CHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            9999999999987652     111122244445667777          99999999999998764 3467888999999


Q ss_pred             HHHhcccCCcchhhhc
Q 036731          242 LVKNEISLNSIPQFNR  257 (259)
Q Consensus       242 ~~~~g~~~~a~~~~~~  257 (259)
                      |...|++++|++.|++
T Consensus       472 ~~~~g~~~~A~~~~~~  487 (537)
T 3fp2_A          472 KLQMEKIDEAIELFED  487 (537)
T ss_dssp             HHHTTCHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHH
Confidence            9999999999998875

>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=99.75  E-value=7.2e-16  Score=119.21  Aligned_cols=222  Identities=13%  Similarity=0.014  Sum_probs=162.2

Q ss_pred             HHhcCChHHHHH-HHHHHhhCCC-CC--chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCC
Q 036731           26 LCKEGFVDKAKE-LFLQMKDENI-NP--NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRK  101 (259)
Q Consensus        26 ~~~~~~~~~a~~-~~~~~~~~~~-~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  101 (259)
                      +.-.|++++|.+ .+++...... .|  +...+..+...+...|++++|...++++.+.. +.+..++..+..++...|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            445678888888 8876654311 11  35668889999999999999999999999874 3467889999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC----------------------
Q 036731          102 MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM----------------------  159 (259)
Q Consensus       102 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------------------  159 (259)
                      +++|...|+++.+..  |+     +..++..+..++...|++++|...++++.+....                      
T Consensus       114 ~~~A~~~~~~al~~~--~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (368)
T 1fch_A          114 ELLAISALRRCLELK--PD-----NQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKR  186 (368)
T ss_dssp             HHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------C
T ss_pred             HHHHHHHHHHHHhcC--CC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHH
Confidence            999999999998764  33     4588999999999999999999999887764321                      


Q ss_pred             -------------------------C---ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC
Q 036731          160 -------------------------P---NVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKN  211 (259)
Q Consensus       160 -------------------------~---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  211 (259)
                                               |   +..++..+...+...|++++|...++++.... +.+..++..+...+...|
T Consensus       187 ~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g  265 (368)
T 1fch_A          187 ILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGN  265 (368)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcC
Confidence                                     1   34566667777777888888888888777652 335667777778888888


Q ss_pred             CHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          212 ETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       212 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ++++|...++++.+.. +.+...+..+..+|.+.|++++|+..|++
T Consensus       266 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  310 (368)
T 1fch_A          266 QSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLE  310 (368)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            8888888888777653 33566777788888888888888777764

>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=99.75  E-value=1.1e-15  Score=112.04  Aligned_cols=198  Identities=9%  Similarity=-0.026  Sum_probs=170.0

Q ss_pred             hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHH
Q 036731           51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAY  130 (259)
Q Consensus        51 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  130 (259)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|.+.++++.+..  |+     +..++
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~-----~~~~~  108 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD--SR-----NARVL  108 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cC-----cHHHH
Confidence            5678888899999999999999999998874 3367888999999999999999999999998753  32     45889


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 036731          131 GCLIDGLCKIGKLKNARELSQSLTRAGLMP-NVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR  209 (259)
Q Consensus       131 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  209 (259)
                      ..+...+...|++++|..+++++.+.+..| +...+..+...+...|++++|...+++..+.. +.+...+..+...+..
T Consensus       109 ~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~  187 (252)
T 2ho1_A          109 NNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYK  187 (252)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHH
Confidence            999999999999999999999998733334 45678888899999999999999999998763 3457889999999999


Q ss_pred             cCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          210 KNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       210 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      .|++++|...++++.+.. +.+...+..+...+...|+.++|.+.++++
T Consensus       188 ~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~  235 (252)
T 2ho1_A          188 EREYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQL  235 (252)
T ss_dssp             TTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            999999999999998764 346778888999999999999999988753

>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=99.74  E-value=4.6e-16  Score=126.23  Aligned_cols=244  Identities=10%  Similarity=0.020  Sum_probs=162.4

Q ss_pred             CCCcccccccc---cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHH
Q 036731            2 ANGNREFGVVC---KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMM   78 (259)
Q Consensus         2 ~~a~~~~~~~~---~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~   78 (259)
                      ++|.+.|+..+   +.++.+|..+..++.+.|++++|.+.|+++.+.+ +.+..++..+..++...|++++|...|+.+.
T Consensus        42 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  120 (537)
T 3fp2_A           42 NEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFDLSVLS  120 (537)
T ss_dssp             C-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            44555555543   2367788888888888888888888888887763 4466777888888888888888877664321


Q ss_pred             Hc------------------------------------------------------------------------------
Q 036731           79 DR------------------------------------------------------------------------------   80 (259)
Q Consensus        79 ~~------------------------------------------------------------------------------   80 (259)
                      ..                                                                              
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  200 (537)
T 3fp2_A          121 LNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDAL  200 (537)
T ss_dssp             -----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHH
T ss_pred             cCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHH
Confidence            00                                                                              


Q ss_pred             -----------------------------CCCCc--------hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCcc
Q 036731           81 -----------------------------GLQSD--------VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFC  123 (259)
Q Consensus        81 -----------------------------~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  123 (259)
                                                   ...|+        ..++..+...+...|++++|...+++..+..  |    
T Consensus       201 ~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~----  274 (537)
T 3fp2_A          201 QRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--P----  274 (537)
T ss_dssp             HHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--C----
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--C----
Confidence                                         00111        1124444455566666777777776666542  2    


Q ss_pred             chhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHH
Q 036731          124 EINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTL  203 (259)
Q Consensus       124 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  203 (259)
                        +..++..+...+...|++++|...+++..+... .+..++..+...+...|++++|...+++..+.. +.+...+..+
T Consensus       275 --~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l  350 (537)
T 3fp2_A          275 --TPNSYIFLALTLADKENSQEFFKFFQKAVDLNP-EYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQL  350 (537)
T ss_dssp             --CHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHH
T ss_pred             --CchHHHHHHHHHHHhcCHHHHHHHHHHHhccCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence              236677777777777777777777777766542 255667777777777777888887777777653 2245667777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          204 MPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       204 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ...+...|++++|...++++.+.. +.+...+..+...+...|++++|++.|++
T Consensus       351 a~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  403 (537)
T 3fp2_A          351 ACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDI  403 (537)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            777777888888888887777653 33456777777777888888777777664

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.73  E-value=2.4e-15  Score=108.03  Aligned_cols=201  Identities=9%  Similarity=-0.043  Sum_probs=168.9

Q ss_pred             CchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHH
Q 036731           49 PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIV  128 (259)
Q Consensus        49 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  128 (259)
                      .+...+..+...+...|++++|.+.++.+.+.. +.+...+..+..++...|++++|...++++.+..  |+     +..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~-----~~~   77 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK--PD-----SAE   77 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--CC-----ChH
Confidence            356778889999999999999999999998874 3367788999999999999999999999998753  32     457


Q ss_pred             HHHHHHHHHHhc-CChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 036731          129 AYGCLIDGLCKI-GKLKNARELSQSLTRAGLMPN-VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPS  206 (259)
Q Consensus       129 ~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  206 (259)
                      ++..+...+... |++++|...++++.+.+..|+ ...+..+..++...|++++|...++++.+.. +.+...+..+...
T Consensus        78 ~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  156 (225)
T 2vq2_A           78 INNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELART  156 (225)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHH
Confidence            899999999999 999999999999988322333 5678888999999999999999999998763 3357888999999


Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          207 FIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       207 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      +...|++++|...++++.+.....+...+..+...+...|+.++|..+++.+
T Consensus       157 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  208 (225)
T 2vq2_A          157 KMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQL  208 (225)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            9999999999999999887643146677778888889999999888877653

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.73  E-value=3.2e-15  Score=110.85  Aligned_cols=225  Identities=9%  Similarity=-0.094  Sum_probs=174.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +..+|..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|...+++..+.. +.+..++..+..
T Consensus        42 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~  119 (275)
T 1xnf_A           42 RAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGI  119 (275)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHH
Confidence            56788999999999999999999999998763 4468889999999999999999999999999874 336788899999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      ++...|++++|...++++.+..  |+.      ......+..+...|++++|...+++..... +++...+ .++..+..
T Consensus       120 ~~~~~g~~~~A~~~~~~a~~~~--~~~------~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~  189 (275)
T 1xnf_A          120 ALYYGGRDKLAQDDLLAFYQDD--PND------PFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLG  189 (275)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTC------HHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTT
T ss_pred             HHHHhccHHHHHHHHHHHHHhC--CCC------hHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHH
Confidence            9999999999999999998753  332      344445556677899999999998877753 2343344 47777788


Q ss_pred             cCChhHHHHHHHHHHhcCCC--C-cHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCc
Q 036731          175 DEQMDKAHDLFLDMEVKGVA--P-NCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNS  251 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~--p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  251 (259)
                      .++.++|...+++.......  | +..++..+...+...|++++|...+++..+..  |+.  +.....++...|++++|
T Consensus       190 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~--~~~~~~~~~~l~~~~~a  265 (275)
T 1xnf_A          190 NISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VHN--FVEHRYALLELSLLGQD  265 (275)
T ss_dssp             SSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CTT--CHHHHHHHHHHHHHHHC
T ss_pred             hcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--chh--HHHHHHHHHHHHHHHhh
Confidence            88889999999988765211  1 15778889999999999999999999998764  322  22335577888898888


Q ss_pred             chhh
Q 036731          252 IPQF  255 (259)
Q Consensus       252 ~~~~  255 (259)
                      ++.+
T Consensus       266 ~~~~  269 (275)
T 1xnf_A          266 QDDL  269 (275)
T ss_dssp             ----
T ss_pred             HHHH
Confidence            8765

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.73  E-value=6.5e-16  Score=114.58  Aligned_cols=219  Identities=11%  Similarity=-0.045  Sum_probs=177.7

Q ss_pred             HhcCChHHHHHHHHHHhhCCC---CCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHH
Q 036731           27 CKEGFVDKAKELFLQMKDENI---NPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMD  103 (259)
Q Consensus        27 ~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  103 (259)
                      ...|++++|+..|+++.+...   +.+..++..+...+...|++++|...|+++.+.. +.+..++..+..++...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            346889999999999987632   1246788889999999999999999999999874 336888999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHH
Q 036731          104 EATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHD  183 (259)
Q Consensus       104 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  183 (259)
                      +|...|++..+..  |+     +..++..+..++...|++++|...++++.+..  |+.......+..+...|++++|..
T Consensus        95 ~A~~~~~~al~~~--~~-----~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~  165 (275)
T 1xnf_A           95 AAYEAFDSVLELD--PT-----YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKE  165 (275)
T ss_dssp             HHHHHHHHHHHHC--TT-----CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHH
T ss_pred             HHHHHHHHHHhcC--cc-----ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHH
Confidence            9999999998753  32     34899999999999999999999999998863  455555555566677899999999


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCcc---chHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          184 LFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP---YASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       184 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      .+++..... +++...+ .++..+...++.++|...+.+..+.....   +...+..+..+|...|++++|++.|++
T Consensus       166 ~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  240 (275)
T 1xnf_A          166 VLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKL  240 (275)
T ss_dssp             HHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            998887662 3343334 47777888899999999999887653221   257888999999999999999998875

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.72  E-value=5.9e-16  Score=112.72  Aligned_cols=198  Identities=11%  Similarity=0.049  Sum_probs=154.0

Q ss_pred             CchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHH
Q 036731           49 PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIV  128 (259)
Q Consensus        49 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  128 (259)
                      .....|..+...+...|++++|...|+++.+.. +.+...+..+..++...|++++|...++++.+..  |+     +..
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~-----~~~   92 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD--SS-----AAT   92 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--Cc-----chH
Confidence            356677888888999999999999999998863 3367888899999999999999999999998753  32     458


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFI  208 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  208 (259)
                      ++..+...+...|++++|...++++.+... .+...+..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus        93 ~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  170 (243)
T 2q7f_A           93 AYYGAGNVYVVKEMYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLA  170 (243)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            899999999999999999999999988753 367788889999999999999999999998763 446788899999999


Q ss_pred             hcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          209 RKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       209 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ..|++++|...++++.+.. +.+..++..+..+|...|++++|.+.|++
T Consensus       171 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~  218 (243)
T 2q7f_A          171 NEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDK  218 (243)
T ss_dssp             HHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            9999999999999988764 34677899999999999999999998875

>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=99.70  E-value=1.8e-16  Score=122.45  Aligned_cols=216  Identities=12%  Similarity=0.134  Sum_probs=113.6

Q ss_pred             CCCcccccccccCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcC
Q 036731            2 ANGNREFGVVCKPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG   81 (259)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~   81 (259)
                      ++|.+.|.+  .+|..+|..++.++...|++++|+..++..++.  .+++.+.+.++.+|.+.|+++++.++++      
T Consensus        49 ~eAIdsfik--a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~------  118 (449)
T 1b89_A           49 KEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN------  118 (449)
T ss_dssp             ----------------------------------------------------------------CHHHHTTTTT------
T ss_pred             HHHHHHHHc--CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc------
Confidence            567777765  478889999999999999999999988777764  4567889999999999999999998884      


Q ss_pred             CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 036731           82 LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN  161 (259)
Q Consensus        82 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  161 (259)
                       .|+..+|..+...|...|.+++|...|..+               ..|..++.++.+.|++++|.+.++++      .+
T Consensus       119 -~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~  176 (449)
T 1b89_A          119 -GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------------SNFGRLASTLVHLGEYQAAVDGARKA------NS  176 (449)
T ss_dssp             -CC----------------CTTTHHHHHHHT---------------TCHHHHHHHHHTTTCHHHHHHHHHHH------TC
T ss_pred             -CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------------hhHHHHHHHHHHhccHHHHHHHHHHc------CC
Confidence             367789999999999999999999999966               36999999999999999999999988      27


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHH
Q 036731          162 VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDL  241 (259)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  241 (259)
                      +.+|..++.+|...|+++.|......+.     .++.....++..|.+.|++++|..+++...... .-...+|.-+..+
T Consensus       177 ~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il  250 (449)
T 1b89_A          177 TRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAIL  250 (449)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHH
Confidence            8899999999999999999966555422     334445578999999999999999999988654 4467788888777


Q ss_pred             HHHh--cccCCcchhh
Q 036731          242 LVKN--EISLNSIPQF  255 (259)
Q Consensus       242 ~~~~--g~~~~a~~~~  255 (259)
                      |++-  |+..+.++.|
T Consensus       251 ~~ky~p~k~~ehl~~~  266 (449)
T 1b89_A          251 YSKFKPQKMREHLELF  266 (449)
T ss_dssp             HHTTCHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHH
Confidence            7765  4445555544

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.69  E-value=5.8e-15  Score=118.11  Aligned_cols=215  Identities=11%  Similarity=0.007  Sum_probs=181.9

Q ss_pred             hHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCCh-hHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHH
Q 036731           32 VDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDG-NEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLD  110 (259)
Q Consensus        32 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  110 (259)
                      ++++...+++.... .+.+...+..+...+...|++ ++|+..|++..+... .+...|..+..+|...|++++|...|+
T Consensus        84 ~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            45566666665544 234778889999999999999 999999999998743 357899999999999999999999999


Q ss_pred             HHHhCCCCCCCccchhHHHHHHHHHHHHhc---------CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc------
Q 036731          111 LMIQGGVRPDAFCEINIVAYGCLIDGLCKI---------GKLKNARELSQSLTRAGLMPNVVTYNITIHALCND------  175 (259)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~------  175 (259)
                      +..+..  |      +...+..+..++...         |++++|...+++..+... -+...|..+..++...      
T Consensus       162 ~al~~~--p------~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~~  232 (474)
T 4abn_A          162 GALTHC--K------NKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV-LDGRSWYILGNAYLSLYFNTGQ  232 (474)
T ss_dssp             HHHTTC--C------CHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHhhC--C------CHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHhhcc
Confidence            998764  4      238899999999999         999999999999988753 3677899999999988      


Q ss_pred             --CChhHHHHHHHHHHhcCCC---CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCC
Q 036731          176 --EQMDKAHDLFLDMEVKGVA---PNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLN  250 (259)
Q Consensus       176 --~~~~~a~~~~~~~~~~~~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  250 (259)
                        |++++|...|++..+.. +   -+...|..+..+|...|++++|.+.|++..+.. +.+...+..+..++...|+.++
T Consensus       233 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~e  310 (474)
T 4abn_A          233 NPKISQQALSAYAQAEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTS  310 (474)
T ss_dssp             CHHHHHHHHHHHHHHHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHH
Confidence              99999999999999862 2   378889999999999999999999999998764 3356778889999999999999


Q ss_pred             cchhhhccC
Q 036731          251 SIPQFNRQK  259 (259)
Q Consensus       251 a~~~~~~~k  259 (259)
                      |++.+.+++
T Consensus       311 Ai~~~~~~~  319 (474)
T 4abn_A          311 LLESKGKTK  319 (474)
T ss_dssp             HHHHTTTCC
T ss_pred             HHHHhcccc
Confidence            998887654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.68  E-value=4.3e-14  Score=98.54  Aligned_cols=165  Identities=16%  Similarity=0.016  Sum_probs=81.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      +..|..+...+.+.|++++|++.|++..+.. +-+..++..+..++...|++++|...+......... +...+..+...
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~   82 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGSA   82 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHHH
Confidence            4445555555555555555555555555442 223445555555555555555555555555444221 33444444455


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND  175 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  175 (259)
                      +...++++.|...+.+.....  |+     +...+..+..++.+.|++++|+..|++..+... .+..+|..+..++...
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~--~~-----~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~lg~~~~~~  154 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALN--TV-----YADAYYKLGLVYDSMGEHDKAIEAYEKTISIKP-GFIRAYQSIGLAYEGK  154 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--cc-----chHHHHHHHHHHHHhCCchhHHHHHHHHHHhcc-hhhhHHHHHHHHHHHC
Confidence            555555555555555544421  21     234455555555555555555555555544321 1334444455555555


Q ss_pred             CChhHHHHHHHHHHh
Q 036731          176 EQMDKAHDLFLDMEV  190 (259)
Q Consensus       176 ~~~~~a~~~~~~~~~  190 (259)
                      |++++|...|++..+
T Consensus       155 g~~~~A~~~~~~al~  169 (184)
T 3vtx_A          155 GLRDEAVKYFKKALE  169 (184)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHh
Confidence            555555555555444

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.68  E-value=2.4e-14  Score=104.94  Aligned_cols=195  Identities=10%  Similarity=0.054  Sum_probs=166.7

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCC--CCCc----hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchh
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDEN--INPN----VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVV   87 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   87 (259)
                      .+..+|..+...+...|++++|.+.+++..+..  ..++    ..++..+...+...|++++|...+++..+..  |+. 
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-  112 (258)
T 3uq3_A           36 KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-  112 (258)
T ss_dssp             CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-
T ss_pred             ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-
Confidence            678899999999999999999999999987652  1112    5788899999999999999999999999863  442 


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHH
Q 036731           88 TFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNI  167 (259)
Q Consensus        88 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  167 (259)
                            ..+...|++++|...++++....  |+     +...+..+...+...|++++|...+++..+... .+..++..
T Consensus       113 ------~~~~~~~~~~~a~~~~~~~~~~~--~~-----~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~  178 (258)
T 3uq3_A          113 ------DILTKLRNAEKELKKAEAEAYVN--PE-----KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAP-EDARGYSN  178 (258)
T ss_dssp             ------HHHHHHHHHHHHHHHHHHHHHCC--HH-----HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHH
T ss_pred             ------HHHHHHhHHHHHHHHHHHHHHcC--cc-----hHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCc-ccHHHHHH
Confidence                  45667788999999999998753  22     568899999999999999999999999988753 36788999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          168 TIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       168 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      +..++...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+.
T Consensus       179 l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          179 RAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            9999999999999999999998873 445788999999999999999999999998765

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.68  E-value=4.8e-15  Score=111.76  Aligned_cols=237  Identities=13%  Similarity=-0.001  Sum_probs=168.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhC-------CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc------C
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDE-------NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR------G   81 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~   81 (259)
                      +..++..+...+...|++++|..+++++.+.       ..+.....+..+...+...|++++|...+++....      +
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            5677889999999999999999999998863       22345677888999999999999999999988764      2


Q ss_pred             C-CCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhC------CCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 036731           82 L-QSDVVTFNVIMDELCKNRKMDEATRLLDLMIQG------GVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLT  154 (259)
Q Consensus        82 ~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  154 (259)
                      . +....++..+...|...|++++|...+++..+.      +..|     ....++..+...+...|++++|..++++..
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  180 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHP-----DVAKQLNNLALLCQNQGKYEEVEYYYQRAL  180 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCH-----HHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCCh-----HHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            2 224667888999999999999999999988764      2222     256788999999999999999999999987


Q ss_pred             Hc------CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhc-------CCCCcH-------HHHHHHHHHHHhcCCH
Q 036731          155 RA------GLMP-NVVTYNITIHALCNDEQMDKAHDLFLDMEVK-------GVAPNC-------VIFTTLMPSFIRKNET  213 (259)
Q Consensus       155 ~~------~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~~p~~-------~~~~~l~~~~~~~~~~  213 (259)
                      +.      +..| ...++..+..++...|++++|...++++.+.       ...+..       ..+..+...+...+.+
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  260 (311)
T 3nf1_A          181 EIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSF  260 (311)
T ss_dssp             HHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCS
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHH
Confidence            64      2122 3457888899999999999999999998753       111111       1122222333344455


Q ss_pred             HHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          214 SKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       214 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      .++...++...... +....++..+..+|.+.|++++|++.|++
T Consensus       261 ~~a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~  303 (311)
T 3nf1_A          261 GEYGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEA  303 (311)
T ss_dssp             CCCC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55555666555432 34566788888889999999988888765

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.68  E-value=6.3e-14  Score=97.72  Aligned_cols=171  Identities=11%  Similarity=-0.006  Sum_probs=148.6

Q ss_pred             chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHH
Q 036731           50 NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVA  129 (259)
Q Consensus        50 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  129 (259)
                      +...|..+...+...|++++|+..|++..+.... +..++..+..+|...|++++|...+.........       +...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-------~~~~   75 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-------SAEA   75 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-------CHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-------hHHH
Confidence            6778999999999999999999999999987533 6788999999999999999999999998875433       4578


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 036731          130 YGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR  209 (259)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  209 (259)
                      +..+...+...++++.+...+.+..+... .+...+..+..++...|++++|...|++..+.. +.+..++..+..++.+
T Consensus        76 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~-~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~  153 (184)
T 3vtx_A           76 YYILGSANFMIDEKQAAIDALQRAIALNT-VYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEG  153 (184)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHH
Confidence            88889999999999999999999888643 367788899999999999999999999998873 4467889999999999


Q ss_pred             cCCHHHHHHHHHHHhhCCCccch
Q 036731          210 KNETSKVIELLRSMDKRNVMPYA  232 (259)
Q Consensus       210 ~~~~~~a~~~~~~~~~~~~~~~~  232 (259)
                      .|++++|.+.|++.++.  .|+.
T Consensus       154 ~g~~~~A~~~~~~al~~--~p~~  174 (184)
T 3vtx_A          154 KGLRDEAVKYFKKALEK--EEKK  174 (184)
T ss_dssp             TTCHHHHHHHHHHHHHT--THHH
T ss_pred             CCCHHHHHHHHHHHHhC--CccC
Confidence            99999999999999876  4543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.67  E-value=1.3e-13  Score=104.16  Aligned_cols=215  Identities=9%  Similarity=-0.006  Sum_probs=108.4

Q ss_pred             HHHHHHHHHHhhCCCCCchHhHHHHHHHHh-------hcCCh-------hHHHHHHHHHHHcCCCCchhhHHHHHHHHHH
Q 036731           33 DKAKELFLQMKDENINPNVVTYNSLIHGFC-------YANDG-------NEAEYLFIEMMDRGLQSDVVTFNVIMDELCK   98 (259)
Q Consensus        33 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   98 (259)
                      ++|..+|++..... +-+...|..++..+.       ..|++       ++|..+|++....-.+-+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            45555565555431 334445555554443       23554       5566666665552111234455556666666


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCccchhHH-HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH-hcC
Q 036731           99 NRKMDEATRLLDLMIQGGVRPDAFCEINIV-AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC-NDE  176 (259)
Q Consensus        99 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-~~~  176 (259)
                      .|++++|..+|++..+.  .|.     +.. +|..++..+.+.|++++|..+|++..+.+. ++...|........ ..|
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~-----~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~  183 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDI-----DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSK  183 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSS-----CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSC
T ss_pred             cCCHHHHHHHHHHHHhc--ccc-----CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcC
Confidence            66666666666665542  222     112 555556666666666666666666555421 12223322222211 245


Q ss_pred             ChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC-Ccc--chHHHHHHHHHHHHhcccCCcch
Q 036731          177 QMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN-VMP--YASILSIIVDLLVKNEISLNSIP  253 (259)
Q Consensus       177 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~a~~  253 (259)
                      ++++|..+|++..+.. +-+...|..++..+.+.|++++|..+|++..... +.|  ....|..++....+.|+.++|..
T Consensus       184 ~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~  262 (308)
T 2ond_A          184 DKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILK  262 (308)
T ss_dssp             CHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            6666666666555441 2244555555555566666666666666655542 232  24455555555555666555555


Q ss_pred             hhhc
Q 036731          254 QFNR  257 (259)
Q Consensus       254 ~~~~  257 (259)
                      ++++
T Consensus       263 ~~~~  266 (308)
T 2ond_A          263 VEKR  266 (308)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            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=99.67  E-value=6.4e-14  Score=103.96  Aligned_cols=203  Identities=11%  Similarity=-0.028  Sum_probs=175.5

Q ss_pred             CcccccccccC-CHHHHHHHHHHHHh----cCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhh----cCChhHHHHHH
Q 036731            4 GNREFGVVCKP-NTVTYNTIIDGLCK----EGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCY----ANDGNEAEYLF   74 (259)
Q Consensus         4 a~~~~~~~~~~-~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~   74 (259)
                      |.+.|+...+| ++.++..+...+..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...|
T Consensus        25 A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~  101 (273)
T 1ouv_A           25 AKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYY  101 (273)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHH
Confidence            44455555544 56788889999999    999999999999999875   77888899999999    99999999999


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh----cCChHHH
Q 036731           75 IEMMDRGLQSDVVTFNVIMDELCK----NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK----IGKLKNA  146 (259)
Q Consensus        75 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  146 (259)
                      ++..+.+   +...+..+...|..    .+++++|...|++..+.+         +...+..+...|..    .+++++|
T Consensus       102 ~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---------~~~a~~~lg~~~~~~~~~~~~~~~A  169 (273)
T 1ouv_A          102 SKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---------DGDGCTILGSLYDAGRGTPKDLKKA  169 (273)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---------CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---------cHHHHHHHHHHHHcCCCCCCCHHHH
Confidence            9999875   67788899999999    999999999999998865         23678888888988    9999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHH
Q 036731          147 RELSQSLTRAGLMPNVVTYNITIHALCN----DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR----KNETSKVIE  218 (259)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~  218 (259)
                      ...|++..+.+   +...+..+...+..    .+++++|...+++..+.+   +...+..+...|..    .+++++|.+
T Consensus       170 ~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~~  243 (273)
T 1ouv_A          170 LASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIE  243 (273)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHH
T ss_pred             HHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHHH
Confidence            99999998874   56778888889999    999999999999999874   26678888888988    999999999


Q ss_pred             HHHHHhhCC
Q 036731          219 LLRSMDKRN  227 (259)
Q Consensus       219 ~~~~~~~~~  227 (259)
                      .+++..+.+
T Consensus       244 ~~~~a~~~~  252 (273)
T 1ouv_A          244 NFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHcC
Confidence            999998876

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.65  E-value=1.2e-14  Score=109.50  Aligned_cols=172  Identities=13%  Similarity=0.073  Sum_probs=139.1

Q ss_pred             CchHhHHHHHHHHhhcCChhHHHHHHHHHHHc-------CCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhC------
Q 036731           49 PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR-------GLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQG------  115 (259)
Q Consensus        49 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------  115 (259)
                      .+..++..+...+...|++++|..+++++.+.       ..+....++..+...|...|++++|...+++....      
T Consensus        25 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           25 ARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            34677888899999999999999999998863       23335677888999999999999999999988754      


Q ss_pred             CCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc------CC-CCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 036731          116 GVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA------GL-MPNVVTYNITIHALCNDEQMDKAHDLFLDM  188 (259)
Q Consensus       116 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  188 (259)
                      +..+     ....++..+...|...|++++|...+++..+.      +. +.....+..+...+...|++++|...+++.
T Consensus       105 ~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  179 (311)
T 3nf1_A          105 KDHP-----AVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRA  179 (311)
T ss_dssp             TTCH-----HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             CCCh-----HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            2122     25678999999999999999999999998764      21 223456788889999999999999999998


Q ss_pred             Hhc------CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          189 EVK------GVAP-NCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       189 ~~~------~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      .+.      +..| ...++..+...+...|++++|.+.++++.+
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          180 LEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             HHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            764      2123 345788889999999999999999999875

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.63  E-value=3e-13  Score=100.04  Aligned_cols=199  Identities=11%  Similarity=-0.035  Sum_probs=160.5

Q ss_pred             hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHH
Q 036731           51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAY  130 (259)
Q Consensus        51 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  130 (259)
                      ...+......+...|++++|+..+++..+... .+...+..+..++...|++++|+..+++..+....++.    ....|
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~----~~~~~   77 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKA----KSADF   77 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTC----CHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhH----HHHHH
Confidence            44566677888999999999999999998743 35668889999999999999999999999884322221    24568


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 036731          131 GCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRK  210 (259)
Q Consensus       131 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  210 (259)
                      ..+...+...|++++|...+++..+... .+..++..+...+...|++++|...+++..+.. +.+...+..+...+...
T Consensus        78 ~~lg~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~  155 (272)
T 3u4t_A           78 EYYGKILMKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYN  155 (272)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHH
Confidence            9999999999999999999999988743 366789999999999999999999999988762 44567777777344455


Q ss_pred             CCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcc---cCCcchhhhc
Q 036731          211 NETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEI---SLNSIPQFNR  257 (259)
Q Consensus       211 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~  257 (259)
                      +++++|.+.++++.+.. +.+...+..+..++...|+   .++|+..|++
T Consensus       156 ~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  204 (272)
T 3u4t_A          156 KEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEK  204 (272)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHH
Confidence            69999999999998764 3346778888888998898   8888887764

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.62  E-value=6.7e-13  Score=102.87  Aligned_cols=217  Identities=10%  Similarity=0.050  Sum_probs=177.5

Q ss_pred             CHHHHHHHHHHHHhcCC-hHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGF-VDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      +..+|+.+..++.+.|+ +++|+..|+++.+.. +-+...|..+..++...|++++|+..|+++.+.... +...|..+.
T Consensus       130 ~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg  207 (382)
T 2h6f_A          130 NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQ  207 (382)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHH
Confidence            67889999999999997 999999999999874 347789999999999999999999999999988543 788999999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh-cCChHHH-----HHHHHHHHHcCCCCChhhHHH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK-IGKLKNA-----RELSQSLTRAGLMPNVVTYNI  167 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a-----~~~~~~~~~~~~~~~~~~~~~  167 (259)
                      .++...|++++|+..++++.+..  |+     +...|+.+..++.. .|..++|     +..+++....... +...|..
T Consensus       208 ~~~~~~g~~~eAl~~~~~al~l~--P~-----~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~P~-~~~a~~~  279 (382)
T 2h6f_A          208 WVIQEFKLWDNELQYVDQLLKED--VR-----NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPH-NESAWNY  279 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTT-CHHHHHH
T ss_pred             HHHHHcCChHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHCCC-CHHHHHH
Confidence            99999999999999999999864  33     56899999999999 6665777     5888888876432 5678888


Q ss_pred             HHHHHHhcC--ChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC---------CHHHHHHHHHHH-hhCCCccchHHH
Q 036731          168 TIHALCNDE--QMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKN---------ETSKVIELLRSM-DKRNVMPYASIL  235 (259)
Q Consensus       168 li~~~~~~~--~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~---------~~~~a~~~~~~~-~~~~~~~~~~~~  235 (259)
                      +...+...|  ++++|.+.+.++ +. .+.+...+..+...|.+.|         ..++|.++++++ .+.+ +.....|
T Consensus       280 l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~D-P~r~~~w  356 (382)
T 2h6f_A          280 LKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKD-TIRKEYW  356 (382)
T ss_dssp             HHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTTC-GGGHHHH
T ss_pred             HHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHhC-chhHHHH
Confidence            888888888  689999999988 33 3456778888899988864         358999999999 6653 3345666


Q ss_pred             HHHHHHHHH
Q 036731          236 SIIVDLLVK  244 (259)
Q Consensus       236 ~~l~~~~~~  244 (259)
                      ..+...+..
T Consensus       357 ~~~~~~l~~  365 (382)
T 2h6f_A          357 RYIGRSLQS  365 (382)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666666554

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.62  E-value=1.1e-13  Score=107.77  Aligned_cols=233  Identities=7%  Similarity=-0.047  Sum_probs=174.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhC----CCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCC------CCchhhHH
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDE----NINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGL------QSDVVTFN   90 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~   90 (259)
                      ....+...|++++|...|++..+.    +-.+ ...++..+...+...|+++.|...+.+..+...      .....+++
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            455678899999999999998764    1111 346788899999999999999999998875311      11245788


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CCChhhH
Q 036731           91 VIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA----GL-MPNVVTY  165 (259)
Q Consensus        91 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~  165 (259)
                      .+..+|...|++++|...+++..+....... ......++..+..+|...|++++|...+++..+.    +. +....++
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  267 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQ-PQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAY  267 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCC-hHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHH
Confidence            8899999999999999999987753211110 1113458899999999999999999999998762    22 3345678


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhc----CCCCcHHHHHHHHHHHHhcCC---HHHHHHHHHHHhhCCCccchHHHHHH
Q 036731          166 NITIHALCNDEQMDKAHDLFLDMEVK----GVAPNCVIFTTLMPSFIRKNE---TSKVIELLRSMDKRNVMPYASILSII  238 (259)
Q Consensus       166 ~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l  238 (259)
                      ..+...+...|++++|...+++..+.    +-+.....+..+...+...|+   +++|..++++..  ........+..+
T Consensus       268 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~--~~~~~~~~~~~l  345 (383)
T 3ulq_A          268 FLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKM--LYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTT--CHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCc--CHHHHHHHHHHH
Confidence            88999999999999999999987654    112222335677788888898   777777776652  123345577789


Q ss_pred             HHHHHHhcccCCcchhhhc
Q 036731          239 VDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       239 ~~~~~~~g~~~~a~~~~~~  257 (259)
                      ...|...|++++|.+.|++
T Consensus       346 a~~y~~~g~~~~A~~~~~~  364 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLK  364 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHH
Confidence            9999999999999998875

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.62  E-value=1.8e-12  Score=97.87  Aligned_cols=212  Identities=8%  Similarity=-0.010  Sum_probs=168.4

Q ss_pred             cccccccc---CCHHHHHHHHHHHHh-------cCCh-------HHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChh
Q 036731            6 REFGVVCK---PNTVTYNTIIDGLCK-------EGFV-------DKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGN   68 (259)
Q Consensus         6 ~~~~~~~~---~~~~~~~~ll~~~~~-------~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~   68 (259)
                      ..|++.+.   -++..|..++..+..       .|++       ++|..+|++..+.-.+-+...|..++..+.+.|+++
T Consensus        37 ~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~  116 (308)
T 2ond_A           37 FAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYE  116 (308)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHH
Confidence            34544432   477788888887763       5886       899999999987312335668999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCc-hh-hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHH-hcCChHH
Q 036731           69 EAEYLFIEMMDRGLQSD-VV-TFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLC-KIGKLKN  145 (259)
Q Consensus        69 ~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~  145 (259)
                      +|..+|++..+.  .|+ .. .|..++..+.+.|++++|..+|++..+..  |.     +...|........ ..|++++
T Consensus       117 ~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--p~-----~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          117 KVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--RT-----RHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             HHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST--TC-----CTHHHHHHHHHHHHTSCCHHH
T ss_pred             HHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CC-----CHHHHHHHHHHHHHHcCCHHH
Confidence            999999999985  443 33 79999999999999999999999998753  22     2355554444432 3699999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC-CCC--cHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 036731          146 ARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG-VAP--NCVIFTTLMPSFIRKNETSKVIELLRS  222 (259)
Q Consensus       146 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~  222 (259)
                      |..+|+...+.. +-+...|..++..+...|++++|..+|++..... +.|  ....|..++....+.|+.+.|..++++
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            999999998763 2367788999999999999999999999999863 455  467888899999999999999999999


Q ss_pred             HhhCC
Q 036731          223 MDKRN  227 (259)
Q Consensus       223 ~~~~~  227 (259)
                      +.+..
T Consensus       267 a~~~~  271 (308)
T 2ond_A          267 RFTAF  271 (308)
T ss_dssp             HHHHT
T ss_pred             HHHHc
Confidence            88753

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.60  E-value=7.1e-14  Score=111.80  Aligned_cols=199  Identities=11%  Similarity=-0.045  Sum_probs=171.9

Q ss_pred             CCHHHHHHHHHHHHhcCCh-HHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFV-DKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVI   92 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   92 (259)
                      .+...|..+...+...|++ ++|++.|++..+.. +-+...|..+..+|...|++++|...|++..+.  .|+...+..+
T Consensus       100 ~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~l  176 (474)
T 4abn_A          100 VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNL  176 (474)
T ss_dssp             CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHH
Confidence            4778899999999999999 99999999998763 345789999999999999999999999999987  4667888999


Q ss_pred             HHHHHHc---------CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhc--------CChHHHHHHHHHHHH
Q 036731           93 MDELCKN---------RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKI--------GKLKNARELSQSLTR  155 (259)
Q Consensus        93 ~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~  155 (259)
                      ..++...         |++++|+..+++..+..  |+     +...|..+..+|...        |++++|...|++..+
T Consensus       177 g~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~-----~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~  249 (474)
T 4abn_A          177 SMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD--VL-----DGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEK  249 (474)
T ss_dssp             HHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHH
Confidence            9999999         99999999999998753  43     568999999999999        999999999999998


Q ss_pred             cCCC--CChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 036731          156 AGLM--PNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSM  223 (259)
Q Consensus       156 ~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  223 (259)
                      ....  -+...|..+..++...|++++|...|++..+.. +-+...+..+...+...|++++|.+.+.++
T Consensus       250 ~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          250 VDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             hCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            6421  377889999999999999999999999998773 335677888889999999999988765443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.59  E-value=7.5e-14  Score=109.55  Aligned_cols=239  Identities=13%  Similarity=-0.012  Sum_probs=179.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCch----HhHHHHHHHHhhcCChhHHHHHHHHHHHc----C-CCCchh
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNV----VTYNSLIHGFCYANDGNEAEYLFIEMMDR----G-LQSDVV   87 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~   87 (259)
                      ..+..+...+...|++++|...|+++.+.+ +.+.    ..+..+...+...|++++|...+++..+.    + ......
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            445566778899999999999999998863 2232    47888889999999999999999988653    1 122356


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC-----------------hHHHHHHH
Q 036731           88 TFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK-----------------LKNARELS  150 (259)
Q Consensus        88 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~  150 (259)
                      ++..+...|...|++++|...+++..+....... ......++..+...|...|+                 +++|...+
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~  206 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGD-RLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFY  206 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC-HHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhc-hHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHH
Confidence            7888899999999999999999887653111000 01245688899999999999                 99999998


Q ss_pred             HHHHHc----CCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCC-CCc----HHHHHHHHHHHHhcCCHHHHHHHH
Q 036731          151 QSLTRA----GLM-PNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGV-APN----CVIFTTLMPSFIRKNETSKVIELL  220 (259)
Q Consensus       151 ~~~~~~----~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~  220 (259)
                      ++..+.    +.. ....++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...+
T Consensus       207 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  286 (411)
T 4a1s_A          207 QENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHY  286 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            886542    111 1234778888899999999999999998875410 011    236788889999999999999999


Q ss_pred             HHHhhCC----C-ccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          221 RSMDKRN----V-MPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       221 ~~~~~~~----~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ++..+..    . .....++..+...|...|++++|++.|++
T Consensus       287 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  328 (411)
T 4a1s_A          287 KRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNR  328 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9876431    1 11256788889999999999999988865

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.58  E-value=2.3e-14  Score=112.45  Aligned_cols=240  Identities=12%  Similarity=-0.039  Sum_probs=182.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhC----C-CCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc----C-CCCch
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDE----N-INPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR----G-LQSDV   86 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~   86 (259)
                      .+|..+...+...|++++|...+++..+.    + .+.....+..+...+...|++++|...+++..+.    + .....
T Consensus        87 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  166 (411)
T 4a1s_A           87 AIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEG  166 (411)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHH
Confidence            47888999999999999999999988653    1 1224567888889999999999999999987654    1 12234


Q ss_pred             hhHHHHHHHHHHcCC-----------------HHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHH
Q 036731           87 VTFNVIMDELCKNRK-----------------MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNAREL  149 (259)
Q Consensus        87 ~~~~~l~~~~~~~~~-----------------~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  149 (259)
                      .++..+...|...|+                 +++|...+++..+....... ......++..+...|...|++++|...
T Consensus       167 ~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~  245 (411)
T 4a1s_A          167 RALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGD-RGAQGRACGNLGNTYYLLGDFQAAIEH  245 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTC-HHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            578888999999999                 99999998876542110000 011346888999999999999999999


Q ss_pred             HHHHHHcCCC-CC----hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCC--C---CcHHHHHHHHHHHHhcCCHHHHHHH
Q 036731          150 SQSLTRAGLM-PN----VVTYNITIHALCNDEQMDKAHDLFLDMEVKGV--A---PNCVIFTTLMPSFIRKNETSKVIEL  219 (259)
Q Consensus       150 ~~~~~~~~~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~---p~~~~~~~l~~~~~~~~~~~~a~~~  219 (259)
                      +++..+.... ++    ..++..+...+...|++++|...+++......  .   ....++..+...+...|++++|...
T Consensus       246 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  325 (411)
T 4a1s_A          246 HQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEY  325 (411)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9988754211 11    23778888999999999999999998775410  0   1246788888999999999999999


Q ss_pred             HHHHhhC----C-CccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          220 LRSMDKR----N-VMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       220 ~~~~~~~----~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      +++..+.    + ......++..+..+|...|++++|.+.|++
T Consensus       326 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  368 (411)
T 4a1s_A          326 HNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQ  368 (411)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            9987653    1 112345788899999999999999998875

>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=99.57  E-value=1.2e-12  Score=90.81  Aligned_cols=163  Identities=16%  Similarity=0.046  Sum_probs=86.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDEL   96 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   96 (259)
                      ..|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            345555556666666666666666655432 2344555555556666666666666666655542 22344555555555


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 036731           97 CKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDE  176 (259)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  176 (259)
                      ...|++++|.+.++++.+..  |+     +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~--~~-----~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~  158 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN--PI-----NFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMG  158 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHhcCHHHHHHHHHHHHhcC--cH-----hHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcC
Confidence            55566666666555555432  11     23455555555555555555555555555442 123344444555555555


Q ss_pred             ChhHHHHHHHHHH
Q 036731          177 QMDKAHDLFLDME  189 (259)
Q Consensus       177 ~~~~a~~~~~~~~  189 (259)
                      ++++|...+++..
T Consensus       159 ~~~~A~~~~~~~~  171 (186)
T 3as5_A          159 RHEEALPHFKKAN  171 (186)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            5555555555444

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.57  E-value=1.5e-11  Score=98.88  Aligned_cols=218  Identities=10%  Similarity=0.031  Sum_probs=123.2

Q ss_pred             CHHHHHHHHHHHHh----cCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhh----cCChhHHHHHHHHHHHcCCCCch
Q 036731           15 NTVTYNTIIDGLCK----EGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCY----ANDGNEAEYLFIEMMDRGLQSDV   86 (259)
Q Consensus        15 ~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~   86 (259)
                      ++.++..+...|..    .+++++|...|++..+.|   +...+..|...|..    .+++++|...|++..+.|   +.
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            55666666666666    667777777777766653   45556666666666    667777777777666654   44


Q ss_pred             hhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCC
Q 036731           87 VTFNVIMDELCK----NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK----IGKLKNARELSQSLTRAGL  158 (259)
Q Consensus        87 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~  158 (259)
                      ..+..|...|..    .+++++|...|++..+.+.         ...+..+...|..    .+++++|...|++..+.| 
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~---------~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~-  181 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGR---------DSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG-  181 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---------HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC---------HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC-
Confidence            455556666666    5666777777766665431         2455555555555    556666666666665543 


Q ss_pred             CCChhhHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCcc
Q 036731          159 MPNVVTYNITIHALCN----DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR----KNETSKVIELLRSMDKRNVMP  230 (259)
Q Consensus       159 ~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~  230 (259)
                        +...+..+...|..    .+++++|..+|++..+.|   +...+..+...|..    .+++++|.+++++..+.+   
T Consensus       182 --~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---  253 (490)
T 2xm6_A          182 --NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---  253 (490)
T ss_dssp             --CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---
T ss_pred             --CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---
Confidence              44455555555554    556666666666555543   33344444444443    455555555555554433   


Q ss_pred             chHHHHHHHHHHHH----hcccCCcchhhh
Q 036731          231 YASILSIIVDLLVK----NEISLNSIPQFN  256 (259)
Q Consensus       231 ~~~~~~~l~~~~~~----~g~~~~a~~~~~  256 (259)
                      +...+..+...|..    .++.++|++.|+
T Consensus       254 ~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~  283 (490)
T 2xm6_A          254 NSIAQFRLGYILEQGLAGAKEPLKALEWYR  283 (490)
T ss_dssp             CHHHHHHHHHHHHHTTTSSCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
Confidence            22333334444444    444444444443

>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=99.57  E-value=6.5e-13  Score=110.74  Aligned_cols=166  Identities=12%  Similarity=0.009  Sum_probs=146.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      ++.+|+.+...+.+.|++++|++.|++..+.. +-+..+|..+..++.+.|++++|+..|++..+.... +...|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            57889999999999999999999999998863 335788999999999999999999999999987433 5788999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      +|...|++++|++.|++..+.  .|+     +..+|+.+..+|...|++++|+..|++..+.... +...+..+..++..
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l--~P~-----~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~  157 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQI--NPA-----FADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQI  157 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTT-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHh
Confidence            999999999999999999875  344     5689999999999999999999999999887432 57789999999999


Q ss_pred             cCChhHHHHHHHHHHh
Q 036731          175 DEQMDKAHDLFLDMEV  190 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~  190 (259)
                      .|++++|.+.++++.+
T Consensus       158 ~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          158 VCDWTDYDERMKKLVS  173 (723)
T ss_dssp             TTCCTTHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHH
Confidence            9999999999888764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.57  E-value=1.1e-13  Score=108.15  Aligned_cols=243  Identities=12%  Similarity=-0.012  Sum_probs=180.4

Q ss_pred             cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc----hHhHHHHHHHHhhcCChhHHHHHHHHHHHc----CCCC
Q 036731           13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN----VVTYNSLIHGFCYANDGNEAEYLFIEMMDR----GLQS   84 (259)
Q Consensus        13 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~   84 (259)
                      .+....+......+...|++++|...|+++.+.+ +.+    ...+..+...+...|++++|...+++....    +..|
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            4566778888899999999999999999998863 223    357888889999999999999999987543    2222


Q ss_pred             -chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC--------------------h
Q 036731           85 -DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK--------------------L  143 (259)
Q Consensus        85 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--------------------~  143 (259)
                       ...++..+...+...|++++|...+++..+....... ......++..+...|...|+                    +
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~  163 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELND-KVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDAL  163 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC-HHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhccc-ccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHH
Confidence             2557788889999999999999999887653211000 01124588889999999999                    9


Q ss_pred             HHHHHHHHHHHHc----CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCC-CCc----HHHHHHHHHHHHhcCCH
Q 036731          144 KNARELSQSLTRA----GLMP-NVVTYNITIHALCNDEQMDKAHDLFLDMEVKGV-APN----CVIFTTLMPSFIRKNET  213 (259)
Q Consensus       144 ~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~~  213 (259)
                      ++|...+++..+.    +..| ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|++
T Consensus       164 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  243 (406)
T 3sf4_A          164 QAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEF  243 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCh
Confidence            9999998876542    1111 234677888888999999999999988765310 111    23677888889999999


Q ss_pred             HHHHHHHHHHhhC----CCcc-chHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          214 SKVIELLRSMDKR----NVMP-YASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       214 ~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ++|...+++..+.    +..+ ...++..+...|...|++++|++.|++
T Consensus       244 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  292 (406)
T 3sf4_A          244 ETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLK  292 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHH
Confidence            9999999887642    1111 255777888889999999999888764

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.56  E-value=2.2e-11  Score=97.96  Aligned_cols=218  Identities=12%  Similarity=0.011  Sum_probs=127.9

Q ss_pred             CHHHHHHHHHHHHh----cCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhh----cCChhHHHHHHHHHHHcCCCCch
Q 036731           15 NTVTYNTIIDGLCK----EGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCY----ANDGNEAEYLFIEMMDRGLQSDV   86 (259)
Q Consensus        15 ~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~   86 (259)
                      ++..+..|...|..    .+++++|.+.|++..+.|   +...+..|...|..    .+++++|...|++..+.|   +.
T Consensus        74 ~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  147 (490)
T 2xm6_A           74 YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RD  147 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            55666667777776    677777777777776654   45556666666666    667777777777776654   44


Q ss_pred             hhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCC
Q 036731           87 VTFNVIMDELCK----NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK----IGKLKNARELSQSLTRAGL  158 (259)
Q Consensus        87 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~  158 (259)
                      ..+..+...|..    .+++++|.+.|++..+.+         +...+..+...|..    .++.++|...|++..+.| 
T Consensus       148 ~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---------~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~-  217 (490)
T 2xm6_A          148 SGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---------NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG-  217 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---------CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC-
Confidence            555666666665    566777777777666543         22556666666665    566666666666666543 


Q ss_pred             CCChhhHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCcc
Q 036731          159 MPNVVTYNITIHALCN----DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR----KNETSKVIELLRSMDKRNVMP  230 (259)
Q Consensus       159 ~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~  230 (259)
                        +...+..+...+..    .+++++|..+|++..+.|   +...+..+...+..    .+++++|.+++++..+.+   
T Consensus       218 --~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---  289 (490)
T 2xm6_A          218 --DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---  289 (490)
T ss_dssp             --CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---
T ss_pred             --CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---
Confidence              34445555555553    556666666666655543   23344444444444    555666666665555443   


Q ss_pred             chHHHHHHHHHHHHh-----cccCCcchhhh
Q 036731          231 YASILSIIVDLLVKN-----EISLNSIPQFN  256 (259)
Q Consensus       231 ~~~~~~~l~~~~~~~-----g~~~~a~~~~~  256 (259)
                      +...+..+...|...     ++.++|++.|+
T Consensus       290 ~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~  320 (490)
T 2xm6_A          290 NSDGQYYLAHLYDKGAEGVAKNREQAISWYT  320 (490)
T ss_dssp             CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHH
Confidence            223444444555444     45555555443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.56  E-value=1.9e-13  Score=106.77  Aligned_cols=241  Identities=9%  Similarity=-0.045  Sum_probs=181.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhC----CCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHcC----CC-Cc
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDE----NINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG----LQ-SD   85 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~-~~   85 (259)
                      ..+|..+...+...|++++|...+++....    +..| ...++..+...+...|++++|...+++..+..    .. ..
T Consensus        47 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  126 (406)
T 3sf4_A           47 SAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGE  126 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccch
Confidence            357888999999999999999999987543    2122 25577888899999999999999999887531    11 11


Q ss_pred             hhhHHHHHHHHHHcCC--------------------HHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHH
Q 036731           86 VVTFNVIMDELCKNRK--------------------MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKN  145 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  145 (259)
                      ..++..+...|...|+                    +++|...+.+.......... ......++..+...|...|++++
T Consensus       127 ~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~  205 (406)
T 3sf4_A          127 ARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGD-RAAQGRAFGNLGNTHYLLGNFRD  205 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHHTBHHH
T ss_pred             HHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccC-cHHHHHHHHHHHHHHHHccCHHH
Confidence            4478888899999999                    99999999876542111100 11235688899999999999999


Q ss_pred             HHHHHHHHHHcCCC-CC----hhhHHHHHHHHHhcCChhHHHHHHHHHHhc----CCCC-cHHHHHHHHHHHHhcCCHHH
Q 036731          146 ARELSQSLTRAGLM-PN----VVTYNITIHALCNDEQMDKAHDLFLDMEVK----GVAP-NCVIFTTLMPSFIRKNETSK  215 (259)
Q Consensus       146 a~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~  215 (259)
                      |...+++..+.... ++    ..++..+...+...|++++|...+++....    +..+ ...++..+...+...|++++
T Consensus       206 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  285 (406)
T 3sf4_A          206 AVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEK  285 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHH
Confidence            99999988653111 11    237888889999999999999999987653    1111 14578888899999999999


Q ss_pred             HHHHHHHHhhC----CCc-cchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          216 VIELLRSMDKR----NVM-PYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       216 a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      |...+++..+.    +.. ....++..+..+|...|++++|++.|++
T Consensus       286 A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  332 (406)
T 3sf4_A          286 AIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  332 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999987643    111 1255788899999999999999998875

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.56  E-value=1.9e-13  Score=103.89  Aligned_cols=240  Identities=14%  Similarity=-0.001  Sum_probs=178.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc----hHhHHHHHHHHhhcCChhHHHHHHHHHHHc----CCCC-ch
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN----VVTYNSLIHGFCYANDGNEAEYLFIEMMDR----GLQS-DV   86 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~   86 (259)
                      ...+......+...|++++|...|+++.+.. +.+    ...+..+...+...|++++|...+++....    +..| ..
T Consensus         5 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   83 (338)
T 3ro2_A            5 CLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   83 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHH
Confidence            3455666778899999999999999998863 223    367888899999999999999999887643    2222 25


Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC--------------------hHHH
Q 036731           87 VTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK--------------------LKNA  146 (259)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--------------------~~~a  146 (259)
                      .++..+...+...|++++|...+++..+....... ......++..+...+...|+                    +++|
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A  162 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELND-KVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAA  162 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHH
Confidence            67788899999999999999999887643211110 01124588889999999999                    9999


Q ss_pred             HHHHHHHHHc----CCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHhc----CC-CCcHHHHHHHHHHHHhcCCHHHH
Q 036731          147 RELSQSLTRA----GLM-PNVVTYNITIHALCNDEQMDKAHDLFLDMEVK----GV-APNCVIFTTLMPSFIRKNETSKV  216 (259)
Q Consensus       147 ~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~-~p~~~~~~~l~~~~~~~~~~~~a  216 (259)
                      ...+++....    +.. ....++..+...+...|++++|...+++..+.    +. .....++..+...+...|++++|
T Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  242 (338)
T 3ro2_A          163 VDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  242 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHH
Confidence            9998886542    111 12346778888899999999999999987654    11 11123677888899999999999


Q ss_pred             HHHHHHHhhC----CCc-cchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          217 IELLRSMDKR----NVM-PYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       217 ~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ...+++..+.    +.. ....++..+...+...|++++|.+.|++
T Consensus       243 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  288 (338)
T 3ro2_A          243 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLK  288 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            9999987642    111 1255777888999999999999888765

>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=99.55  E-value=3.1e-13  Score=100.30  Aligned_cols=228  Identities=13%  Similarity=-0.028  Sum_probs=155.1

Q ss_pred             HhcCChHHHHHHHHHHhhC-------CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc------CC-CCchhhHHHH
Q 036731           27 CKEGFVDKAKELFLQMKDE-------NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR------GL-QSDVVTFNVI   92 (259)
Q Consensus        27 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l   92 (259)
                      ...|++++|+..+++..+.       ..+....++..+...+...|++++|...+++..+.      +. +....++..+
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            3467777777777776542       22334677888999999999999999999988754      22 2245678889


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCC---CCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCC-Ch
Q 036731           93 MDELCKNRKMDEATRLLDLMIQGGV---RPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA------GLMP-NV  162 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~  162 (259)
                      ..+|...|++++|...+++......   .++  .+....++..+...|...|++++|...+++..+.      +-.| ..
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  169 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKF--HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVA  169 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCC--ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHH
Confidence            9999999999999999998875410   011  0125688999999999999999999999998765      1122 35


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhc-------CCCCcH-HHHHHHHHHHHhcCC------HHHHHHHHHHHhhCCC
Q 036731          163 VTYNITIHALCNDEQMDKAHDLFLDMEVK-------GVAPNC-VIFTTLMPSFIRKNE------TSKVIELLRSMDKRNV  228 (259)
Q Consensus       163 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~~p~~-~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~  228 (259)
                      .++..+...+...|++++|...+++..+.       ...+.. ..+..+.......+.      +..+...++.... ..
T Consensus       170 ~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~  248 (283)
T 3edt_B          170 KTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DS  248 (283)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CC
Confidence            57888899999999999999999988753       112222 223333333333222      2222222222221 12


Q ss_pred             ccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          229 MPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       229 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      +....++..+..+|...|++++|.+.|++
T Consensus       249 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~  277 (283)
T 3edt_B          249 PTVNTTLRSLGALYRRQGKLEAAHTLEDC  277 (283)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            33456778888889999999999888865

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.55  E-value=8e-14  Score=105.96  Aligned_cols=241  Identities=10%  Similarity=-0.031  Sum_probs=180.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhC----CCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCC-Cc----
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDE----NINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ-SD----   85 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~----   85 (259)
                      ...|..+...+...|++++|.+.+++....    +..| ...++..+...+...|++++|...+++..+.... ++    
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  122 (338)
T 3ro2_A           43 SAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGE  122 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHH
Confidence            467888999999999999999999887543    2122 3567788889999999999999999987653111 11    


Q ss_pred             hhhHHHHHHHHHHcCC--------------------HHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHH
Q 036731           86 VVTFNVIMDELCKNRK--------------------MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKN  145 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  145 (259)
                      ..++..+...+...|+                    +++|...+++.......... ......++..+...+...|++++
T Consensus       123 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~  201 (338)
T 3ro2_A          123 ARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGD-RAAQGRAFGNLGNTHYLLGNFRD  201 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTC-HHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHHHHHhCCHHH
Confidence            3477888899999999                    99999998876532110000 01134688889999999999999


Q ss_pred             HHHHHHHHHHcCC-----CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc----CCCC-cHHHHHHHHHHHHhcCCHHH
Q 036731          146 ARELSQSLTRAGL-----MPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK----GVAP-NCVIFTTLMPSFIRKNETSK  215 (259)
Q Consensus       146 a~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~  215 (259)
                      |...+++..+...     .....++..+...+...|++++|...+++....    +..+ ...++..+...+...|++++
T Consensus       202 A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  281 (338)
T 3ro2_A          202 AVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEK  281 (338)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHH
Confidence            9999998765311     111337788888999999999999999987654    1111 14567788899999999999


Q ss_pred             HHHHHHHHhhC----C-CccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          216 VIELLRSMDKR----N-VMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       216 a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      |...+++..+.    + ......++..+...|...|++++|.+.|++
T Consensus       282 A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  328 (338)
T 3ro2_A          282 AIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  328 (338)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            99999987643    1 112245778899999999999999998875

>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=99.55  E-value=2.1e-12  Score=89.61  Aligned_cols=166  Identities=18%  Similarity=0.082  Sum_probs=141.7

Q ss_pred             hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHH
Q 036731           51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAY  130 (259)
Q Consensus        51 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  130 (259)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+..  |+     +..++
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~-----~~~~~   79 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA--PD-----NVKVA   79 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CC-----CHHHH
Confidence            4567778888999999999999999887653 3367788889999999999999999999988753  32     45788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 036731          131 GCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRK  210 (259)
Q Consensus       131 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  210 (259)
                      ..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...
T Consensus        80 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~  157 (186)
T 3as5_A           80 TVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQM  157 (186)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHc
Confidence            999999999999999999999998864 3467788889999999999999999999988773 44678889999999999


Q ss_pred             CCHHHHHHHHHHHhhC
Q 036731          211 NETSKVIELLRSMDKR  226 (259)
Q Consensus       211 ~~~~~a~~~~~~~~~~  226 (259)
                      |++++|.+.+++..+.
T Consensus       158 ~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          158 GRHEEALPHFKKANEL  173 (186)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHc
Confidence            9999999999988754

>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=99.54  E-value=8.3e-12  Score=89.99  Aligned_cols=198  Identities=12%  Similarity=-0.009  Sum_probs=151.6

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      .|+..|......+.+.|++++|...|++..+...+++...+..+..++...|++++|+..+++..+.... +...+..+.
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            4678888999999999999999999999988753367778888999999999999999999999887433 677888999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhH-----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC---hhhH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINI-----VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN---VVTY  165 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~  165 (259)
                      .++...|++++|...+++..+.  .|+.   +..     .+|..+...+...|++++|...|++..+.  .|+   ...+
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~--~p~~---~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~  156 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKA--VPGN---ATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDAL  156 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTC---HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHH--CCCc---HHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHH
Confidence            9999999999999999998875  3431   111     56888888999999999999999998876  344   4566


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          166 NITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       166 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      ..+..++...|     ...++++...+ ..+...|.....  ...+.+++|...+++..+..
T Consensus       157 ~~l~~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~~--~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          157 YSLGVLFYNNG-----ADVLRKATPLA-SSNKEKYASEKA--KADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHHH--HHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHHH--HHHHHHHHHHHHHHHHhhcC
Confidence            66767665543     34455555543 233444544432  34567899999999988763

>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=99.54  E-value=1.4e-12  Score=108.78  Aligned_cols=166  Identities=11%  Similarity=-0.010  Sum_probs=145.9

Q ss_pred             chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHH
Q 036731           50 NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVA  129 (259)
Q Consensus        50 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  129 (259)
                      +..+|+.|...+.+.|++++|++.|++..+.... +..++..+..+|.+.|++++|+..|++..+.  .|+     +..+
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~-----~~~a   79 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPT-----FADA   79 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT-----CHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC-----CHHH
Confidence            4678999999999999999999999999987433 5788999999999999999999999999875  444     5689


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 036731          130 YGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR  209 (259)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  209 (259)
                      |..+..++...|++++|++.|++..+.... +...|..+..++...|++++|...|++..+.. +-+...+..+...+..
T Consensus        80 ~~nLg~~l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~  157 (723)
T 4gyw_A           80 YSNMGNTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQI  157 (723)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHh
Confidence            999999999999999999999999887433 67789999999999999999999999998873 3357789999999999


Q ss_pred             cCCHHHHHHHHHHHhh
Q 036731          210 KNETSKVIELLRSMDK  225 (259)
Q Consensus       210 ~~~~~~a~~~~~~~~~  225 (259)
                      .|++++|.+.++++.+
T Consensus       158 ~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          158 VCDWTDYDERMKKLVS  173 (723)
T ss_dssp             TTCCTTHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHH
Confidence            9999999998887654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.53  E-value=1.8e-12  Score=100.69  Aligned_cols=232  Identities=9%  Similarity=-0.012  Sum_probs=172.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhCC--CC---CchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCC-----CC-chhhHH
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDEN--IN---PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGL-----QS-DVVTFN   90 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~~--~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-----~~-~~~~~~   90 (259)
                      ....+...|++++|...|++..+.-  +.   ....++..+...|...|+++.|...+++..+...     .+ ...+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            3445678999999999999987541  11   1245778888999999999999999998875311     11 245778


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHH-----cCCCCChhhH
Q 036731           91 VIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTR-----AGLMPNVVTY  165 (259)
Q Consensus        91 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  165 (259)
                      .+..+|...|++++|...+++..+....... ......++..+..+|...|++++|...+++..+     .. +....++
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~  264 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQN-DRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVL  264 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHH
Confidence            8999999999999999999887653211110 012346888999999999999999999999876     32 2236678


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcC----CCCcHHHHHHHHHHHHhcCC---HHHHHHHHHHHhhCCCccchHHHHHH
Q 036731          166 NITIHALCNDEQMDKAHDLFLDMEVKG----VAPNCVIFTTLMPSFIRKNE---TSKVIELLRSMDKRNVMPYASILSII  238 (259)
Q Consensus       166 ~~li~~~~~~~~~~~a~~~~~~~~~~~----~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l  238 (259)
                      ..+...+...|++++|...+++..+..    -+.....+..+...+...++   +.+|...+++..  ........+..+
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~--~~~~~~~~~~~l  342 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKN--LHAYIEACARSA  342 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTT--CHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCC--ChhHHHHHHHHH
Confidence            889999999999999999999987642    12223456666677777888   777777776532  122344567789


Q ss_pred             HHHHHHhcccCCcchhhhc
Q 036731          239 VDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       239 ~~~~~~~g~~~~a~~~~~~  257 (259)
                      ...|...|++++|.+.|++
T Consensus       343 a~~y~~~g~~~~A~~~~~~  361 (378)
T 3q15_A          343 AAVFESSCHFEQAAAFYRK  361 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHH
Confidence            9999999999999998875

>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=99.52  E-value=2.5e-13  Score=100.76  Aligned_cols=159  Identities=13%  Similarity=0.049  Sum_probs=125.4

Q ss_pred             hhcCChhHHHHHHHHHHHc-------CCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhC------CCCCCCccchhHH
Q 036731           62 CYANDGNEAEYLFIEMMDR-------GLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQG------GVRPDAFCEINIV  128 (259)
Q Consensus        62 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~~  128 (259)
                      ...|++++|...+++..+.       ..+....++..+...|...|++++|...+++..+.      +..|     ....
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~-----~~~~   86 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHP-----AVAA   86 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCH-----HHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcch-----HHHH
Confidence            4668888888888777642       22334677888999999999999999999988754      2122     2568


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc------C-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc------CCCC
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRA------G-LMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK------GVAP  195 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~~~p  195 (259)
                      ++..+..+|...|++++|...+++..+.      . .+....++..+...+...|++++|...+++..+.      +-.|
T Consensus        87 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  166 (283)
T 3edt_B           87 TLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDP  166 (283)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            8999999999999999999999998764      1 1223567888899999999999999999998765      1122


Q ss_pred             -cHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          196 -NCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       196 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                       ...++..+...+...|++++|...+++..+
T Consensus       167 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          167 NVAKTKNNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             356788899999999999999999998875

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.51  E-value=1.3e-11  Score=88.93  Aligned_cols=165  Identities=12%  Similarity=-0.044  Sum_probs=112.9

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      ++...+..+..++.+.|++++|++.|++..+.. +-+...|..+...+...|++++|...+++..+... .+...+..+.
T Consensus        40 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~  117 (228)
T 4i17_A           40 QDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSAAYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYA  117 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHH
Confidence            677888889999999999999999999998763 33677888999999999999999999999988732 2455666777


Q ss_pred             HHHHHcCCHHHHHHHHHHHH---hCCCCCCCccch--hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 036731           94 DELCKNRKMDEATRLLDLMI---QGGVRPDAFCEI--NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNIT  168 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  168 (259)
                      ..+...|.......-+++..   +..+..++   .  +...+..+..+|...|     ..+++++...+. .+...|...
T Consensus       118 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p---~~~~~~~~~~l~~~~~~~~-----~~~~~~a~~~~~-~~~~~~~~~  188 (228)
T 4i17_A          118 IYYLKEGQKFQQAGNIEKAEENYKHATDVTS---KKWKTDALYSLGVLFYNNG-----ADVLRKATPLAS-SNKEKYASE  188 (228)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHTTSSC---HHHHHHHHHHHHHHHHHHH-----HHHHHHHGGGTT-TCHHHHHHH
T ss_pred             HHHHHHhHHHHHhccHHHHHHHHHHHHhcCC---CcccHHHHHHHHHHHHHHH-----HHHHHHHHhccc-CCHHHHHHH
Confidence            77877776554433333322   12233322   2  3567777777776543     444555555432 233444433


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhc
Q 036731          169 IHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       169 i~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      .  ....+.+++|...+++..+.
T Consensus       189 ~--~~~~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          189 K--AKADAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             H--HHHHHHHHHHHHHHHHHHHH
T ss_pred             H--HHHHHHHHHHHHHHHHHhhc
Confidence            3  23456788999999998876

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.49  E-value=1.6e-11  Score=90.45  Aligned_cols=200  Identities=10%  Similarity=-0.086  Sum_probs=150.0

Q ss_pred             CchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc---hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccch
Q 036731           49 PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD---VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEI  125 (259)
Q Consensus        49 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  125 (259)
                      .+...+..+...+.+.|++++|...|+.+.+.... +   ...+..+..+|...|++++|...|+++.+......    .
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~----~   87 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDP----R   87 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCT----T
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCc----h
Confidence            35566777777888899999999999998876322 2   56778888899999999999999999887532211    1


Q ss_pred             hHHHHHHHHHHHHh--------cCChHHHHHHHHHHHHcCCCCChhhH-----------------HHHHHHHHhcCChhH
Q 036731          126 NIVAYGCLIDGLCK--------IGKLKNARELSQSLTRAGLMPNVVTY-----------------NITIHALCNDEQMDK  180 (259)
Q Consensus       126 ~~~~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~li~~~~~~~~~~~  180 (259)
                      ...++..+..++..        .|++++|...|+++.+.... +....                 ..+...+...|++++
T Consensus        88 ~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  166 (261)
T 3qky_A           88 VPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQKIRELRAKLARKQYEAARLYERRELYEA  166 (261)
T ss_dssp             HHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             hHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHH
Confidence            45678888888888        99999999999999886322 22333                 455778899999999


Q ss_pred             HHHHHHHHHhcCCCCc----HHHHHHHHHHHHhc----------CCHHHHHHHHHHHhhCCCcc--chHHHHHHHHHHHH
Q 036731          181 AHDLFLDMEVKGVAPN----CVIFTTLMPSFIRK----------NETSKVIELLRSMDKRNVMP--YASILSIIVDLLVK  244 (259)
Q Consensus       181 a~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~  244 (259)
                      |...|+++.+.  .|+    ...+..+..++...          |++++|...++++.+.....  -......+...+..
T Consensus       167 A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~~~~~  244 (261)
T 3qky_A          167 AAVTYEAVFDA--YPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTRARQR  244 (261)
T ss_dssp             HHHHHHHHHHH--CTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHH
Confidence            99999999876  333    45677788888766          89999999999998763221  13455666677777


Q ss_pred             hcccCCcchhhh
Q 036731          245 NEISLNSIPQFN  256 (259)
Q Consensus       245 ~g~~~~a~~~~~  256 (259)
                      .|+.+++..+..
T Consensus       245 ~~~~~~~~~~~~  256 (261)
T 3qky_A          245 LTELEGDASLAQ  256 (261)
T ss_dssp             HHHHHTCTTCCC
T ss_pred             HHHhhhhhHHhh
Confidence            788777666543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.48  E-value=2e-11  Score=99.08  Aligned_cols=233  Identities=9%  Similarity=-0.004  Sum_probs=174.5

Q ss_pred             HHHHHHHHHHHhc----CCh----HHHHHHHHHHhhCCCCCchHhHHHHHHHHhh-------cCChh-------HHHHHH
Q 036731           17 VTYNTIIDGLCKE----GFV----DKAKELFLQMKDENINPNVVTYNSLIHGFCY-------ANDGN-------EAEYLF   74 (259)
Q Consensus        17 ~~~~~ll~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~~~~~-------~a~~~~   74 (259)
                      ..|...+......    ++.    ++|..+|++.... .+-+...|..+...+.+       .|+++       +|..++
T Consensus       231 ~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~-~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~  309 (530)
T 2ooe_A          231 DMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIY  309 (530)
T ss_dssp             HHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHH
Confidence            4566655444332    232    3777889888875 24467888888887775       79987       899999


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 036731           75 IEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLT  154 (259)
Q Consensus        75 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  154 (259)
                      ++..+.-.+.+...|..++..+.+.|++++|..+|+++.+.  .|..    ...+|..++..+.+.|++++|..+|++..
T Consensus       310 ~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~----~~~~~~~~~~~~~~~~~~~~A~~~~~~Al  383 (530)
T 2ooe_A          310 ERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDID----PTLVYIQYMKFARRAEGIKSGRMIFKKAR  383 (530)
T ss_dssp             HHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSC----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccC----chHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            99986323346788999999999999999999999999885  3431    12589999999999999999999999998


Q ss_pred             HcCCCCChhhHHHHHHH-HHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-cc--
Q 036731          155 RAGLMPNVVTYNITIHA-LCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNV-MP--  230 (259)
Q Consensus       155 ~~~~~~~~~~~~~li~~-~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~--  230 (259)
                      +... .+...|...... +...|+.++|..+|+...+.. +-+...|..++..+.+.|+.++|..+|++....+. .|  
T Consensus       384 ~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~  461 (530)
T 2ooe_A          384 EDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEK  461 (530)
T ss_dssp             TCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGG
T ss_pred             hccC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHH
Confidence            7632 223333322222 336899999999999988762 33578899999999999999999999999987642 23  


Q ss_pred             chHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          231 YASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       231 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      ....|...+......|+.+.+..++++.
T Consensus       462 ~~~lw~~~~~~e~~~G~~~~~~~~~~r~  489 (530)
T 2ooe_A          462 SGEIWARFLAFESNIGDLASILKVEKRR  489 (530)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            2457888888888899998888877653

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.46  E-value=1.2e-11  Score=92.75  Aligned_cols=212  Identities=12%  Similarity=-0.002  Sum_probs=151.2

Q ss_pred             ChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc----CCCCc-hhhHHHHHHHHHHcCCHHHH
Q 036731           31 FVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR----GLQSD-VVTFNVIMDELCKNRKMDEA  105 (259)
Q Consensus        31 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a  105 (259)
                      ++++|...|++.               ...|...|++++|...|.+..+.    |.+++ ..+|+.+..+|...|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            477777777665               44677889999999999887653    32222 56888999999999999999


Q ss_pred             HHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhc-CChHHHHHHHHHHHHcCCCC-C----hhhHHHHHHHHHhcCChh
Q 036731          106 TRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKI-GKLKNARELSQSLTRAGLMP-N----VVTYNITIHALCNDEQMD  179 (259)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~li~~~~~~~~~~  179 (259)
                      +..+++..+....... ...-..+++.+..+|... |++++|...|++..+..... +    ..++..+...+...|+++
T Consensus        97 ~~~~~~Al~l~~~~g~-~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~  175 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQ-FRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYI  175 (292)
T ss_dssp             HHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHcCC-HHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHH
Confidence            9999887753211110 001246888999999996 99999999999987642110 1    346888899999999999


Q ss_pred             HHHHHHHHHHhcCCCCcH------HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCcc-c---hHHHHHHHHHHH--Hhcc
Q 036731          180 KAHDLFLDMEVKGVAPNC------VIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP-Y---ASILSIIVDLLV--KNEI  247 (259)
Q Consensus       180 ~a~~~~~~~~~~~~~p~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~---~~~~~~l~~~~~--~~g~  247 (259)
                      +|...|++..+.......      ..+..+..++...|++++|...+++..+..... +   ...+..++.++.  ..++
T Consensus       176 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~  255 (292)
T 1qqe_A          176 EASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQ  255 (292)
T ss_dssp             HHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTT
T ss_pred             HHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHH
Confidence            999999999876322211      256777888999999999999999988642211 1   123445566664  3456


Q ss_pred             cCCcchhhhcc
Q 036731          248 SLNSIPQFNRQ  258 (259)
Q Consensus       248 ~~~a~~~~~~~  258 (259)
                      +++|++.|+++
T Consensus       256 ~~~A~~~~~~~  266 (292)
T 1qqe_A          256 LSEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHHHTTS
T ss_pred             HHHHHHHhccC
Confidence            77888877654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.46  E-value=1.1e-10  Score=94.85  Aligned_cols=202  Identities=7%  Similarity=0.009  Sum_probs=161.5

Q ss_pred             CHHHHHHHHHHHHh-------cCChH-------HHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731           15 NTVTYNTIIDGLCK-------EGFVD-------KAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus        15 ~~~~~~~ll~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      ++..|......+.+       .|+++       +|..+|++..+.-.+-+...|..++..+.+.|++++|..+|+++.+.
T Consensus       271 ~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~  350 (530)
T 2ooe_A          271 HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI  350 (530)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc
Confidence            67788888888876       79987       89999999986323446888999999999999999999999999986


Q ss_pred             CCCCc--hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHH-HHhcCChHHHHHHHHHHHHcC
Q 036731           81 GLQSD--VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDG-LCKIGKLKNARELSQSLTRAG  157 (259)
Q Consensus        81 ~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~  157 (259)
                        .|+  ...|..++..+.+.|++++|..+|++..+..  |.     +...|...... +...|+.++|..+|+...+..
T Consensus       351 --~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~--~~-----~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~  421 (530)
T 2ooe_A          351 --EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--RT-----RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY  421 (530)
T ss_dssp             --SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT--TC-----CTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             --cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc--CC-----chHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC
Confidence              443  2578899999999999999999999998752  22     12333333222 346899999999999988763


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC-CCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          158 LMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG-VAPN--CVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       158 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                       +-+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+......|+.+.+..+.+++.+.
T Consensus       422 -p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          422 -GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             -TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             2357889999999999999999999999998863 2332  457888888888999999999999998764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.44  E-value=3.7e-11  Score=90.00  Aligned_cols=207  Identities=10%  Similarity=-0.016  Sum_probs=152.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhC----CCCCc-hHhHHHHHHHHhhcCChhHHHHHHHHHHHcC----CCC-ch
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDE----NINPN-VVTYNSLIHGFCYANDGNEAEYLFIEMMDRG----LQS-DV   86 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~   86 (259)
                      ..|+.....|...|++++|...|.+....    |-+++ ..+|+.+..+|...|++++|+..+++..+..    -.. ..
T Consensus        38 ~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a  117 (292)
T 1qqe_A           38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (292)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            46888888999999999999999888653    32222 5688999999999999999999999887542    111 14


Q ss_pred             hhHHHHHHHHHHc-CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChh--
Q 036731           87 VTFNVIMDELCKN-RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVV--  163 (259)
Q Consensus        87 ~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--  163 (259)
                      .+++.+..+|... |++++|+..|++..+....... ......++..+...+.+.|++++|...|++..+........  
T Consensus       118 ~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~-~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  196 (292)
T 1qqe_A          118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQS-VALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQW  196 (292)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGG
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCC-hHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccH
Confidence            5788899999996 9999999999988754211110 00013578899999999999999999999998864332221  


Q ss_pred             ----hHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcH------HHHHHHHHHHH--hcCCHHHHHHHHHHHhhC
Q 036731          164 ----TYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNC------VIFTTLMPSFI--RKNETSKVIELLRSMDKR  226 (259)
Q Consensus       164 ----~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~------~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~  226 (259)
                          .|..+..++...|++++|...|++..+.  .|+.      ..+..++.++.  ..+++++|...++++...
T Consensus       197 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l  269 (292)
T 1qqe_A          197 SLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRL  269 (292)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCcc
Confidence                4677788899999999999999998764  3332      13444566664  456788888888777643

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.44  E-value=1.6e-10  Score=92.29  Aligned_cols=220  Identities=15%  Similarity=0.009  Sum_probs=142.1

Q ss_pred             hcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHh----hcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHH
Q 036731           28 KEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFC----YANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMD  103 (259)
Q Consensus        28 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  103 (259)
                      ..++.++|++.+++..+.. +.+..++..+...+.    ..+++++|.+++++..... +.+..++..+...|...|+++
T Consensus       187 ~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~  264 (472)
T 4g1t_A          187 NWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPD  264 (472)
T ss_dssp             HSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHH
T ss_pred             CchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchH
Confidence            3455555666665555432 223344444433333    2356777888888777664 336677888999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhc-------------------CChHHHHHHHHHHHHcCCCCChhh
Q 036731          104 EATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKI-------------------GKLKNARELSQSLTRAGLMPNVVT  164 (259)
Q Consensus       104 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~  164 (259)
                      +|...+++..+.  .|+     +..++..+..+|...                   +..+.|...++...+... .+..+
T Consensus       265 ~A~~~~~~al~~--~p~-----~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~  336 (472)
T 4g1t_A          265 KAIELLKKALEY--IPN-----NAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAND-NLFRV  336 (472)
T ss_dssp             HHHHHHHHHHHH--STT-----CHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCT-TTCCC
T ss_pred             HHHHHHHHHHHh--CCC-----hHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCC-chhhh
Confidence            999999998875  344     456777776665432                   235677888888777643 35678


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHH--HHHHHHH-HHHhcCCHHHHHHHHHHHhhCCC-------------
Q 036731          165 YNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCV--IFTTLMP-SFIRKNETSKVIELLRSMDKRNV-------------  228 (259)
Q Consensus       165 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~--~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~-------------  228 (259)
                      +..+...+...|++++|...|++..+....|...  .+..+.. .....|++++|...+++..+...             
T Consensus       337 ~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~  416 (472)
T 4g1t_A          337 CSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQ  416 (472)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHH
T ss_pred             hhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHH
Confidence            8899999999999999999999998774333221  2223322 23577899999998887765321             


Q ss_pred             ----------ccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          229 ----------MPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       229 ----------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                                +.+..++..+..+|...|+.++|++.|++
T Consensus       417 ~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~k  455 (472)
T 4g1t_A          417 KIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSER  455 (472)
T ss_dssp             HHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC--------
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                      23566888999999999999999999876

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.43  E-value=6.6e-11  Score=91.67  Aligned_cols=238  Identities=11%  Similarity=-0.007  Sum_probs=167.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhC----CCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHc----CCC--C-c
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDE----NINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDR----GLQ--S-D   85 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~   85 (259)
                      +++.+...+...|++++|...+++....    |... ...++..+...+...|++++|...+++....    +..  | .
T Consensus        55 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  134 (373)
T 1hz4_A           55 ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMH  134 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHH
Confidence            5667778888999999999999887653    2110 1233566777888999999999999887653    221  2 2


Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh-hh
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNV-VT  164 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~  164 (259)
                      ...+..+...+...|++++|...+++..........  .....++..+...+...|++++|...+++.......++. ..
T Consensus       135 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~  212 (373)
T 1hz4_A          135 EFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQP--QQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSD  212 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCG--GGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCc--HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchh
Confidence            345667888899999999999999988754332211  113457888889999999999999999988754212111 12


Q ss_pred             HH-----HHHHHHHhcCChhHHHHHHHHHHhcCCCC---cHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCccch
Q 036731          165 YN-----ITIHALCNDEQMDKAHDLFLDMEVKGVAP---NCVIFTTLMPSFIRKNETSKVIELLRSMDKR----NVMPYA  232 (259)
Q Consensus       165 ~~-----~li~~~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~  232 (259)
                      +.     ..+..+...|++++|...+++.......+   ....+..+...+...|++++|...+++....    +..++.
T Consensus       213 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~  292 (373)
T 1hz4_A          213 WISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDL  292 (373)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhH
Confidence            22     22344778999999999998887543211   1234667778889999999999999887542    322222


Q ss_pred             -HHHHHHHHHHHHhcccCCcchhhhc
Q 036731          233 -SILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       233 -~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                       ..+..+..++...|+.++|...|++
T Consensus       293 ~~~~~~la~~~~~~g~~~~A~~~l~~  318 (373)
T 1hz4_A          293 NRNLLLLNQLYWQAGRKSDAQRVLLD  318 (373)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence             3666778888999999999887764

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.42  E-value=1.4e-10  Score=89.89  Aligned_cols=239  Identities=10%  Similarity=-0.051  Sum_probs=166.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhCCCCCch----HhHHHHHHHHhhcCChhHHHHHHHHHHHcCCC-Cc----hhhH
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQMKDENINPNV----VTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ-SD----VVTF   89 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~   89 (259)
                      +......+...|++++|...+++.....-..+.    ..++.+...+...|++++|...+++....... .+    ..++
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            344455677899999999999998775312122    24566677888999999999999987653111 11    2335


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCc-cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--C--Chhh
Q 036731           90 NVIMDELCKNRKMDEATRLLDLMIQGGVRPDAF-CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM--P--NVVT  164 (259)
Q Consensus        90 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~--~~~~  164 (259)
                      ..+...+...|++++|...+++........... .......+..+...+...|++++|...+++.......  +  ...+
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            667888999999999999998876432110000 0113456777888999999999999999998764321  1  2346


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc--HHHHH----HHHHHHHhcCCHHHHHHHHHHHhhCCCcc---chHHH
Q 036731          165 YNITIHALCNDEQMDKAHDLFLDMEVKGVAPN--CVIFT----TLMPSFIRKNETSKVIELLRSMDKRNVMP---YASIL  235 (259)
Q Consensus       165 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~  235 (259)
                      +..+...+...|++++|...+++.....-.++  .....    ..+..+...|++++|...+++.......+   ....+
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            77788889999999999999998865411111  11111    23344778999999999999987643221   23356


Q ss_pred             HHHHHHHHHhcccCCcchhhhc
Q 036731          236 SIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       236 ~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ..+...+...|++++|.+.+++
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~  278 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEE  278 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHH
Confidence            6788899999999999888764

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.42  E-value=6.3e-11  Score=87.99  Aligned_cols=177  Identities=8%  Similarity=0.026  Sum_probs=131.3

Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHH
Q 036731           70 AEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNAREL  149 (259)
Q Consensus        70 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  149 (259)
                      |+..+++....+ .++..++..+..++...|++++|++++.+....+..+.     +...+..++..+.+.|+.+.|.+.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~-----~lea~~l~vqi~L~~~r~d~A~k~  158 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEG-----TTELLLLAIEVALLNNNVSTASTI  158 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTT-----HHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcC-----cHHHHHHHHHHHHHCCCHHHHHHH
Confidence            667777776654 44556666888999999999999999998876553222     678999999999999999999999


Q ss_pred             HHHHHHcCCCC-----ChhhHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHH
Q 036731          150 SQSLTRAGLMP-----NVVTYNITIHALCN----DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELL  220 (259)
Q Consensus       150 ~~~~~~~~~~~-----~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  220 (259)
                      +++|.+.  .|     +..+...+..++..    .+++.+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.+
T Consensus       159 l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L  234 (310)
T 3mv2_B          159 FDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIV  234 (310)
T ss_dssp             HHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHH
Confidence            9999875  45     35566666666332    34899999999999776  566444445555889999999999999


Q ss_pred             HHHhhCC---------CccchHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          221 RSMDKRN---------VMPYASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       221 ~~~~~~~---------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      +.+.+..         -+-+..++.-++......|+  +|.++++++
T Consensus       235 ~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL  279 (310)
T 3mv2_B          235 ELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQL  279 (310)
T ss_dssp             HHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHH
T ss_pred             HHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHH
Confidence            9766531         02356666566666666676  777777664

>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=99.40  E-value=7.5e-11  Score=102.22  Aligned_cols=200  Identities=10%  Similarity=0.093  Sum_probs=120.7

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +..+|..+..++.+.|++++|.+.|.+.      -|...|..++.++.+.|++++|.+++....+..  ++....+.++.
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~Laf 1175 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF 1175 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHH
Confidence            3566777888888888888888887553      266677778888888888888888887666553  23333334777


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      +|++.+++++...+.    +   .+      +...|..+...|...|++++|..+|...         ..|..+..++.+
T Consensus      1176 aYAKl~rleele~fI----~---~~------n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvk 1233 (1630)
T 1xi4_A         1176 ALAKTNRLAELEEFI----N---GP------NNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVH 1233 (1630)
T ss_pred             HHHhhcCHHHHHHHH----h---CC------CHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHH
Confidence            777777766433332    1   11      2345666777777788888888877764         267777777777


Q ss_pred             cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchh
Q 036731          175 DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      .|++++|.+.+++..      +..+|..+..+|...|++..|......     +..+...+..++..|.+.|.+++|+.+
T Consensus      1234 Lge~q~AIEaarKA~------n~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~L 1302 (1630)
T 1xi4_A         1234 LGEYQAAVDGARKAN------STRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITM 1302 (1630)
T ss_pred             hCCHHHHHHHHHHhC------CHHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            777777777776552      234444444444444444444333321     112333344444445555555554444


Q ss_pred             h
Q 036731          255 F  255 (259)
Q Consensus       255 ~  255 (259)
                      +
T Consensus      1303 l 1303 (1630)
T 1xi4_A         1303 L 1303 (1630)
T ss_pred             H
Confidence            4

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.40  E-value=4.3e-11  Score=93.10  Aligned_cols=204  Identities=10%  Similarity=-0.004  Sum_probs=155.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhC--CC----CCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCC----CC
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDE--NI----NPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGL----QS   84 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~----~~   84 (259)
                      ...+|..+...|...|++++|...+++..+.  ..    +....+++.+...|...|++++|...+++..+...    .+
T Consensus       142 ~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  221 (383)
T 3ulq_A          142 KAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQ  221 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChH
Confidence            3567889999999999999999999988753  11    11245788888999999999999999998875411    11


Q ss_pred             -chhhHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc---
Q 036731           85 -DVVTFNVIMDELCKNRKMDEATRLLDLMIQG----GVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA---  156 (259)
Q Consensus        85 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  156 (259)
                       ...++..+..+|...|++++|...+++..+.    +..|.     ...++..+..+|...|++++|...+++..+.   
T Consensus       222 ~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~  296 (383)
T 3ulq_A          222 LMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPS-----LPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQK  296 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGG-----HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchh-----HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence             1247888999999999999999999988762    22122     4678999999999999999999999987653   


Q ss_pred             -CCCCChhhHHHHHHHHHhcCC---hhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          157 -GLMPNVVTYNITIHALCNDEQ---MDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       157 -~~~~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                       +-+.....+..+...+...|+   +++|..++++....  +.....+..+...|...|++++|...+++..+
T Consensus       297 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~--~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          297 AGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLY--ADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCH--HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             111122335667778888888   77777777665211  22345677888999999999999999998764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.40  E-value=1.2e-10  Score=85.73  Aligned_cols=170  Identities=11%  Similarity=-0.061  Sum_probs=135.5

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc---hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCC--Cchhh
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN---VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ--SDVVT   88 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~   88 (259)
                      .++..+-.+...+.+.|++++|...|+++.+.. +.+   ...+..+..++...|++++|...|++..+....  .....
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            467778888899999999999999999998763 223   677888999999999999999999999986321  22456


Q ss_pred             HHHHHHHHHH--------cCCHHHHHHHHHHHHhCCCCCCCccchhHHHH-----------------HHHHHHHHhcCCh
Q 036731           89 FNVIMDELCK--------NRKMDEATRLLDLMIQGGVRPDAFCEINIVAY-----------------GCLIDGLCKIGKL  143 (259)
Q Consensus        89 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~~~~  143 (259)
                      +..+..++..        .|++++|...|+++.+..  |+.     ....                 ..+..+|...|++
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~-----~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~  164 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNH-----ELVDDATQKIRELRAKLARKQYEAARLYERRELY  164 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTC-----TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCc-----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCH
Confidence            7778888888        999999999999998753  331     1222                 5678889999999


Q ss_pred             HHHHHHHHHHHHcCCCC--ChhhHHHHHHHHHhc----------CChhHHHHHHHHHHhc
Q 036731          144 KNARELSQSLTRAGLMP--NVVTYNITIHALCND----------EQMDKAHDLFLDMEVK  191 (259)
Q Consensus       144 ~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~----------~~~~~a~~~~~~~~~~  191 (259)
                      ++|...|+++.+.....  ....+..+..++...          |++++|...|+++.+.
T Consensus       165 ~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          165 EAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            99999999998763221  234677777788766          8899999999999876

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.39  E-value=8.5e-10  Score=88.05  Aligned_cols=221  Identities=14%  Similarity=0.005  Sum_probs=159.5

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhC--------CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcC----
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDE--------NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG----   81 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----   81 (259)
                      ..+..||.|...+...|++++|++.|++..+.        ..+....+|+.+..+|...|++++|...+++..+..    
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            34678999999999999999999999887542        122345788999999999999999999998876421    


Q ss_pred             --CC-CchhhHHHHHHHHHHc--CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHH---HHhcCChHHHHHHHHHH
Q 036731           82 --LQ-SDVVTFNVIMDELCKN--RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDG---LCKIGKLKNARELSQSL  153 (259)
Q Consensus        82 --~~-~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~  153 (259)
                        .. ....++..+..++...  +++++|+..|++..+.  .|+     ++..+..+..+   +...++.++|+..+++.
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~-----~~~~~~~~~~~~~~l~~~~~~~~al~~~~~a  201 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPK-----NPEFTSGLAIASYRLDNWPPSQNAIDPLRQA  201 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STT-----CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHH
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCC-----CHHHHHHHHHHHHHhcCchHHHHHHHHHHHH
Confidence              11 1245666666666554  5789999999998875  444     34555555554   34567888999999988


Q ss_pred             HHcCCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc
Q 036731          154 TRAGLMPNVVTYNITIHALCN----DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVM  229 (259)
Q Consensus       154 ~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  229 (259)
                      .+... .+..++..+...+..    .+++++|...+++..... +.+..++..+...+...|++++|...+++..+.. +
T Consensus       202 l~l~p-~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p  278 (472)
T 4g1t_A          202 IRLNP-DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-P  278 (472)
T ss_dssp             HHHCS-SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             hhcCC-cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-C
Confidence            87642 245556555555443    467889999999988763 4567788899999999999999999999998764 2


Q ss_pred             cchHHHHHHHHHHHH
Q 036731          230 PYASILSIIVDLLVK  244 (259)
Q Consensus       230 ~~~~~~~~l~~~~~~  244 (259)
                      .+..++..+..+|..
T Consensus       279 ~~~~~~~~lg~~y~~  293 (472)
T 4g1t_A          279 NNAYLHCQIGCCYRA  293 (472)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHH
Confidence            355666666666644

>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=99.38  E-value=1.1e-10  Score=76.38  Aligned_cols=130  Identities=16%  Similarity=0.184  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELC   97 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   97 (259)
                      +|..+...+...|++++|..+++++.+.. +.+...+..+...+...|++++|...++++...+ +.+...+..+...+.
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            45556666666677777777666665542 2345555666666666666666666666666543 224455555666666


Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731           98 KNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      ..|++++|.+.++++.+..  |.     +..++..+...+...|++++|...++++...
T Consensus        81 ~~~~~~~A~~~~~~~~~~~--~~-----~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD--PR-----SAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC--CC-----ChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            6666666666666665432  11     2355556666666666666666666665543

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.36  E-value=1.3e-10  Score=82.52  Aligned_cols=189  Identities=13%  Similarity=0.032  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc-hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN-VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ..+-.....+.+.|++++|...|++..+.  .|+ ...|...     ....              ...........+..+
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~-----~~~~--------------~~~~~~~~~~~lg~~   63 (208)
T 3urz_A            5 DEMLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWT-----NVDK--------------NSEISSKLATELALA   63 (208)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHH-----HSCT--------------TSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHh-----hhcc--------------hhhhhHHHHHHHHHH
Confidence            33444455666777777777777777654  232 2223220     0000              000011222336666


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND  175 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  175 (259)
                      |...|++++|+..|++..+..  |+     +...+..+..++...|++++|...|++..+.... +..++..+..++...
T Consensus        64 ~~~~g~~~~A~~~~~~al~~~--p~-----~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           64 YKKNRNYDKAYLFYKELLQKA--PN-----NVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLT  135 (208)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC--CC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHH
Confidence            777777777777777766542  33     4566777777777777777777777777665322 455666666665544


Q ss_pred             CC--hhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHH
Q 036731          176 EQ--MDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSII  238 (259)
Q Consensus       176 ~~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  238 (259)
                      |+  ...+...++.....  .|....+.....++...|++++|...|++.++.  .|+......+
T Consensus       136 ~~~~~~~~~~~~~~~~~~--~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l  196 (208)
T 3urz_A          136 AEQEKKKLETDYKKLSSP--TKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHHHHHHC---CC--CHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhCC--CchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence            43  33444444444321  222223333444555667777777777777754  4454444433

>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=99.36  E-value=1.7e-10  Score=75.37  Aligned_cols=130  Identities=14%  Similarity=0.129  Sum_probs=102.0

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHH
Q 036731           88 TFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNI  167 (259)
Q Consensus        88 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  167 (259)
                      .|..+...+...|++++|..+++++.+..  |+     +...+..+...+...|++++|...++++...+. .+...+..
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~-----~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~   74 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD--PR-----SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYN   74 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC--Cc-----chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCC-CchHHHHH
Confidence            46667788888888888888888887643  22     346778888888888999999999888877642 35667778


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          168 TIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       168 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      +...+...|++++|...++++.... +.+...+..+...+...|++++|...++++.+.
T Consensus        75 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           75 LGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            8888888899999999988887763 345677888888888899999999988887754

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.35  E-value=2.6e-10  Score=81.00  Aligned_cols=174  Identities=11%  Similarity=-0.048  Sum_probs=120.8

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCch-hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHH
Q 036731           53 TYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDV-VTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYG  131 (259)
Q Consensus        53 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (259)
                      .+......+...|++++|...|++..+.  .|+. ..|...     ....                .    .........
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~-----~~~~----------------~----~~~~~~~~~   58 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWT-----NVDK----------------N----SEISSKLAT   58 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHH-----HSCT----------------T----SHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHh-----hhcc----------------h----hhhhHHHHH
Confidence            3344455677889999999999988876  2332 222110     0000                0    011335566


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC
Q 036731          132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKN  211 (259)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  211 (259)
                      .+..+|.+.|++++|...|++..+.... +...+..+..++...|++++|...|++..+.. +-+..++..+...+...|
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHh
Confidence            7889999999999999999999987533 67889999999999999999999999999873 345778888888876655


Q ss_pred             C--HHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          212 E--TSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       212 ~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      .  .+.+...++....  ..|....+.....++...|++++|+..|++
T Consensus       137 ~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~  182 (208)
T 3urz_A          137 EQEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQK  182 (208)
T ss_dssp             HHHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            4  3445555555542  233333455566777888999999998875

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.33  E-value=4.3e-10  Score=87.33  Aligned_cols=203  Identities=8%  Similarity=-0.039  Sum_probs=152.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhC----CC-CC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHc----CCCC
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDE----NI-NP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDR----GLQS   84 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~   84 (259)
                      ...++..+...|...|+++.|...+++..+.    +. .+ ...+++.+...|...|++++|...+++..+.    +..+
T Consensus       140 ~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~  219 (378)
T 3q15_A          140 KAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDR  219 (378)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            3567888999999999999999999988653    11 11 2457788899999999999999999988753    1111


Q ss_pred             -chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC---CCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--
Q 036731           85 -DVVTFNVIMDELCKNRKMDEATRLLDLMIQGG---VRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGL--  158 (259)
Q Consensus        85 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--  158 (259)
                       ...++..+..+|...|++++|...+++.....   ..|     ....++..+..++.+.|++++|...+++..+...  
T Consensus       220 ~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~-----~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  294 (378)
T 3q15_A          220 FIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPD-----LLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITAR  294 (378)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGG-----GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTT
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCCh-----hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHc
Confidence             23567889999999999999999999887621   111     1467899999999999999999999999876422  


Q ss_pred             --CCChhhHHHHHHHHHhcCC---hhHHHHHHHHHHhcCCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          159 --MPNVVTYNITIHALCNDEQ---MDKAHDLFLDMEVKGVAP-NCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       159 --~~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                        +.....+..+...+...++   +.+|...+++.   +..| ....+..+...|...|++++|...+++..+
T Consensus       295 ~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          295 SHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             CCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence              1123345555566667777   77777777662   2222 334667788999999999999999998764

>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=99.33  E-value=4.9e-10  Score=79.82  Aligned_cols=177  Identities=14%  Similarity=0.075  Sum_probs=107.4

Q ss_pred             HHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcC----CHHHHHHHH
Q 036731           34 KAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNR----KMDEATRLL  109 (259)
Q Consensus        34 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  109 (259)
                      +|.+.|++..+.|   +...+..+...|...+++++|...|++..+.|   +...+..|...|.. +    ++++|...|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            3555666665543   55566666666666677777777777666654   44555556666655 4    667777777


Q ss_pred             HHHHhCCCCCCCccchhHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCC-CChhhHHHHHHHHHh----cCChhH
Q 036731          110 DLMIQGGVRPDAFCEINIVAYGCLIDGLCK----IGKLKNARELSQSLTRAGLM-PNVVTYNITIHALCN----DEQMDK  180 (259)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~  180 (259)
                      ++..+.+         +...+..+...|..    .+++++|...|++..+.|.. .+...+..|...|..    .+++++
T Consensus        77 ~~A~~~g---------~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~  147 (212)
T 3rjv_A           77 EKAVEAG---------SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVK  147 (212)
T ss_dssp             HHHHHTT---------CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHH
T ss_pred             HHHHHCC---------CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHH
Confidence            7665543         22566666666665    66777777777776665421 014556666666666    666777


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHhhCCC
Q 036731          181 AHDLFLDMEVKGVAPNCVIFTTLMPSFIRK-N-----ETSKVIELLRSMDKRNV  228 (259)
Q Consensus       181 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~~  228 (259)
                      |..+|++..+.  ..+...+..|...|... |     ++++|..++++..+.|.
T Consensus       148 A~~~~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          148 ASEYFKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            77777777665  22333555555555432 2     67777777777766654

>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=99.32  E-value=4e-10  Score=80.28  Aligned_cols=178  Identities=12%  Similarity=-0.022  Sum_probs=144.8

Q ss_pred             CCCccccccccc-CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcC----ChhHHHHHHHH
Q 036731            2 ANGNREFGVVCK-PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN----DGNEAEYLFIE   76 (259)
Q Consensus         2 ~~a~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~----~~~~a~~~~~~   76 (259)
                      ++|.+.|....+ -++.++..+...|...+++++|.++|++..+.|   +...+..|...|.. +    ++++|..+|++
T Consensus         3 ~eA~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~   78 (212)
T 3rjv_A            3 TEPGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEK   78 (212)
T ss_dssp             -CTTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHH
T ss_pred             chHHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHH
Confidence            467777776654 478899999999999999999999999998875   66778888888877 6    89999999999


Q ss_pred             HHHcCCCCchhhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh----cCChHHHHH
Q 036731           77 MMDRGLQSDVVTFNVIMDELCK----NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK----IGKLKNARE  148 (259)
Q Consensus        77 ~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~  148 (259)
                      ..+.|   +...+..|...|..    .+++++|+..|++..+.+...+     ++..+..|...|..    .+++++|..
T Consensus        79 A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~-----~~~a~~~Lg~~y~~g~g~~~d~~~A~~  150 (212)
T 3rjv_A           79 AVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDA-----AVDAQMLLGLIYASGVHGPEDDVKASE  150 (212)
T ss_dssp             HHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHH-----HHHHHHHHHHHHHHTSSSSCCHHHHHH
T ss_pred             HHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcc-----hHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            98775   56778888888887    8899999999999987654200     24789999999998    889999999


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhc-C-----ChhHHHHHHHHHHhcCC
Q 036731          149 LSQSLTRAGLMPNVVTYNITIHALCND-E-----QMDKAHDLFLDMEVKGV  193 (259)
Q Consensus       149 ~~~~~~~~~~~~~~~~~~~li~~~~~~-~-----~~~~a~~~~~~~~~~~~  193 (259)
                      .|++..+.  ..+...+..+...|... |     ++++|..+|+...+.|.
T Consensus       151 ~~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          151 YFKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            99999886  23455677777777653 3     89999999999988874

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.32  E-value=7.3e-11  Score=98.53  Aligned_cols=173  Identities=8%  Similarity=-0.077  Sum_probs=141.5

Q ss_pred             HhcCChHHHHHHHHHHh--------hCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH
Q 036731           27 CKEGFVDKAKELFLQMK--------DENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK   98 (259)
Q Consensus        27 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   98 (259)
                      ...|++++|++.+++..        +. .+.+...+..+...+...|++++|+..|++..+... .+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHH
Confidence            77899999999999987        33 244677888899999999999999999999988743 367788999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh
Q 036731           99 NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQM  178 (259)
Q Consensus        99 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  178 (259)
                      .|++++|...|++..+..  |+     +...+..+..++.+.|++++ ...|++..+.+.. +...|..+..++...|++
T Consensus       480 ~g~~~~A~~~~~~al~l~--P~-----~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~  550 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF--PG-----ELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDR  550 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS--TT-----CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             cCCHHHHHHHHHHHHHhC--CC-----ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCH
Confidence            999999999999998753  33     45889999999999999999 9999999887533 667889999999999999


Q ss_pred             hHHHHHHHHHHhcCCCCc-HHHHHHHHHHHHhcCC
Q 036731          179 DKAHDLFLDMEVKGVAPN-CVIFTTLMPSFIRKNE  212 (259)
Q Consensus       179 ~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~  212 (259)
                      ++|...|++..+.  .|+ ...+..+..++...+.
T Consensus       551 ~~A~~~~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          551 VGAVRTLDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHHHHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHHHHHHHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            9999999998876  454 5667777777766554

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.32  E-value=8.4e-11  Score=98.15  Aligned_cols=174  Identities=8%  Similarity=-0.081  Sum_probs=143.0

Q ss_pred             hhcCChhHHHHHHHHHH--------HcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHH
Q 036731           62 CYANDGNEAEYLFIEMM--------DRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCL  133 (259)
Q Consensus        62 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l  133 (259)
                      ...|++++|++.+++..        +. .+.+...+..+..++...|++++|+..|++..+.  .|+     +...|..+
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~-----~~~a~~~l  473 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAER--VGW-----RWRLVWYR  473 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCC-----CHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--Ccc-----hHHHHHHH
Confidence            78899999999999998        43 2335678888999999999999999999999875  343     56899999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 036731          134 IDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNET  213 (259)
Q Consensus       134 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  213 (259)
                      ..++...|++++|...|++..+.... +...|..+..++...|++++ ...|++..+.+ +-+...|..+..++.+.|++
T Consensus       474 g~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~  550 (681)
T 2pzi_A          474 AVAELLTGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDR  550 (681)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCH
Confidence            99999999999999999999887532 66788899999999999999 99999998873 34677899999999999999


Q ss_pred             HHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcc
Q 036731          214 SKVIELLRSMDKRNVMPYASILSIIVDLLVKNEI  247 (259)
Q Consensus       214 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  247 (259)
                      ++|.+.+++..+.+. -+...+..+..++...|+
T Consensus       551 ~~A~~~~~~al~l~P-~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          551 VGAVRTLDEVPPTSR-HFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHHHHTSCTTST-THHHHHHHHHHHTC----
T ss_pred             HHHHHHHHhhcccCc-ccHHHHHHHHHHHHccCC
Confidence            999999999887642 245667777777766554

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.31  E-value=1.8e-09  Score=80.23  Aligned_cols=185  Identities=9%  Similarity=0.029  Sum_probs=135.6

Q ss_pred             HHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCC-CCchhhHHHHHHHHHHcCCHHHHHHHHHHHH
Q 036731           35 AKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGL-QSDVVTFNVIMDELCKNRKMDEATRLLDLMI  113 (259)
Q Consensus        35 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  113 (259)
                      |+..|++....+ .++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.++.|.
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            677787777654 45666667888999999999999999999877654 2367788889999999999999999999998


Q ss_pred             hCCCCCCCccchhHHHHHHHHHH--HHhcC--ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 036731          114 QGGVRPDAFCEINIVAYGCLIDG--LCKIG--KLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDME  189 (259)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~l~~~--~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  189 (259)
                      +.  .|+. .-.+-.+...++.+  ....|  ++++|..+|+++.+.  .|+..+-..++.++...|++++|...++.+.
T Consensus       164 ~~--~~d~-~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 NA--IEDT-VSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HH--SCHH-HHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hc--Cccc-cccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            74  3300 00012455555555  33334  899999999998765  3553344455558999999999999999766


Q ss_pred             hc-----C----CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          190 VK-----G----VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       190 ~~-----~----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      +.     +    -+-++.+...++......|+  +|.++++++.+..
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            53     0    13466777677766666787  8899999998763

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.31  E-value=1.5e-09  Score=78.02  Aligned_cols=186  Identities=9%  Similarity=-0.050  Sum_probs=105.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCC-C-chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCch--hhHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENIN-P-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDV--VTFN   90 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~   90 (259)
                      ++..+..+...+.+.|++++|...|+++.+.... | ....+..+..++.+.|++++|+..|+++.+.......  ..+.
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            3444555666667777777777777777654211 1 1245666666777777777777777777665322111  1233


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChh-hH----
Q 036731           91 VIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVV-TY----  165 (259)
Q Consensus        91 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~----  165 (259)
                      .+..++...+..     .+                  ..|..+...+...|++++|...|+++.+..  |+.. .+    
T Consensus        83 ~~g~~~~~~~~~-----~~------------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~  137 (225)
T 2yhc_A           83 MRGLTNMALDDS-----AL------------------QGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATK  137 (225)
T ss_dssp             HHHHHHHHHHC-------------------------------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHH
T ss_pred             HHHHHHHhhhhh-----hh------------------hhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHH
Confidence            333333332210     00                  122233334445788999999999998763  3332 22    


Q ss_pred             -------------HHHHHHHHhcCChhHHHHHHHHHHhcCCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          166 -------------NITIHALCNDEQMDKAHDLFLDMEVKGVAPN----CVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       166 -------------~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                                   ..+...+.+.|++++|...|+++.+.  .|+    ...+..+..++.+.|++++|.+.++.+...+
T Consensus       138 ~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          138 RLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                         23344566777888888888777765  232    2456667777778888888888877776653

>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=99.30  E-value=1e-09  Score=95.39  Aligned_cols=206  Identities=13%  Similarity=0.159  Sum_probs=162.2

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      -|...|..++.++.+.|++++|.+.+...++..  ++....+.++.+|++.++++....+.    .   .++...|..+.
T Consensus      1132 dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iG 1202 (1630)
T 1xi4_A         1132 DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVG 1202 (1630)
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHH
Confidence            578889999999999999999999999887763  34434446999999999988644332    2   34566777899


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALC  173 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  173 (259)
                      ..|...|++++|..+|...               ..|..+..++.+.|++++|.+.+++..      +..+|..+-.+|.
T Consensus      1203 d~le~eg~YeeA~~~Y~kA---------------~ny~rLA~tLvkLge~q~AIEaarKA~------n~~aWkev~~acv 1261 (1630)
T 1xi4_A         1203 DRCYDEKMYDAAKLLYNNV---------------SNFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACV 1261 (1630)
T ss_pred             HHHHhcCCHHHHHHHHHhh---------------hHHHHHHHHHHHhCCHHHHHHHHHHhC------CHHHHHHHHHHHh
Confidence            9999999999999999874               479999999999999999999998762      6689999999999


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHh--cccCCc
Q 036731          174 NDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN--EISLNS  251 (259)
Q Consensus       174 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~a  251 (259)
                      ..|++..|......+     ..++..+..++..|.+.|.+++|..+++..+..+ .-....|.-+..+|.+.  ++..++
T Consensus      1262 e~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEh 1335 (1630)
T 1xi4_A         1262 DGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREH 1335 (1630)
T ss_pred             hhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHH
Confidence            999999998876542     3456678899999999999999999998887554 33556666666666554  333444


Q ss_pred             chhh
Q 036731          252 IPQF  255 (259)
Q Consensus       252 ~~~~  255 (259)
                      ++.|
T Consensus      1336 lk~f 1339 (1630)
T 1xi4_A         1336 LELF 1339 (1630)
T ss_pred             HHHH
Confidence            4443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.30  E-value=1.5e-10  Score=92.09  Aligned_cols=233  Identities=7%  Similarity=0.010  Sum_probs=119.9

Q ss_pred             CCCcccccccccCCHHHHHHHHHHHHhcC-----ChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChh---HHHHH
Q 036731            2 ANGNREFGVVCKPNTVTYNTIIDGLCKEG-----FVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGN---EAEYL   73 (259)
Q Consensus         2 ~~a~~~~~~~~~~~~~~~~~ll~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~---~a~~~   73 (259)
                      ++|.++|....+.++..+..+...+...+     ++++|...|++..+.|..   ..+..|...|...+..+   .+.+.
T Consensus        55 ~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~  131 (452)
T 3e4b_A           55 KQAEATYRAAADTSPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQ  131 (452)
T ss_dssp             ----------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHH
Confidence            56777887777667777777777565555     778999999998876532   24555555554443322   22333


Q ss_pred             HHHHHHcCC--------------------------------CCchhhHHHHHHHHHHcC---CHHHHHHHHHHHHhCCCC
Q 036731           74 FIEMMDRGL--------------------------------QSDVVTFNVIMDELCKNR---KMDEATRLLDLMIQGGVR  118 (259)
Q Consensus        74 ~~~~~~~~~--------------------------------~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~  118 (259)
                      +......|.                                ..++..+..|...|...|   +.++|++.|++..+.|..
T Consensus       132 ~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~  211 (452)
T 3e4b_A          132 ISQWQAAGYPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV  211 (452)
T ss_dssp             HHHHHHHTCTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH
Confidence            332222221                                223335556666666666   666666666666665533


Q ss_pred             CCCccchhHHHHHHHHHHHHhc----CChHHHHHHHHHHHHcCCCCChhhHHHHHHH-H--HhcCChhHHHHHHHHHHhc
Q 036731          119 PDAFCEINIVAYGCLIDGLCKI----GKLKNARELSQSLTRAGLMPNVVTYNITIHA-L--CNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       119 ~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~--~~~~~~~~a~~~~~~~~~~  191 (259)
                             +...+..+...|...    +++++|...|++.. .|   +...+..+... +  ...+++++|..+|++..+.
T Consensus       212 -------~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~  280 (452)
T 3e4b_A          212 -------TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA  280 (452)
T ss_dssp             -------CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT
T ss_pred             -------HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC
Confidence                   123335555555443    56667777776665 32   34445555444 3  3466677777777766665


Q ss_pred             CCCCcHHHHHHHHHHHHhcC-----CHHHHHHHHHHHhhCCCccchHHHHHHHHHHHH----hcccCCcchhhh
Q 036731          192 GVAPNCVIFTTLMPSFIRKN-----ETSKVIELLRSMDKRNVMPYASILSIIVDLLVK----NEISLNSIPQFN  256 (259)
Q Consensus       192 ~~~p~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~  256 (259)
                      |   +...+..|...|. .|     ++++|.++|++.. .|   +......+...|..    ..+.++|++.|+
T Consensus       281 g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~  346 (452)
T 3e4b_A          281 D---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLL  346 (452)
T ss_dssp             T---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHH
T ss_pred             C---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHH
Confidence            4   4455555555555 34     6777777776665 32   34455555555554    124555655554

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.28  E-value=2.8e-09  Score=76.56  Aligned_cols=166  Identities=10%  Similarity=0.003  Sum_probs=103.2

Q ss_pred             Cccccccccc--CC----HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCch----HhHHHHHHHHhhcCChhHHHHH
Q 036731            4 GNREFGVVCK--PN----TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNV----VTYNSLIHGFCYANDGNEAEYL   73 (259)
Q Consensus         4 a~~~~~~~~~--~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~   73 (259)
                      |.+.|+..++  |+    ...+..+..++.+.|++++|+..|+++.+..  |+.    ..+..+..++...+..     .
T Consensus        23 A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a~~~~g~~~~~~~~~-----~   95 (225)
T 2yhc_A           23 AITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYVMYMRGLTNMALDDS-----A   95 (225)
T ss_dssp             HHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHC-------
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHHHHHHHHHHHhhhhh-----h
Confidence            4445555432  33    3578888999999999999999999998762  332    2444444455442210     0


Q ss_pred             HHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchh------------HHHHHHHHHHHHhcC
Q 036731           74 FIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEIN------------IVAYGCLIDGLCKIG  141 (259)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~------------~~~~~~l~~~~~~~~  141 (259)
                      +            ..|..+...+...|++++|...|+++.+..  |+....++            ......+...|.+.|
T Consensus        96 ~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~  161 (225)
T 2yhc_A           96 L------------QGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERG  161 (225)
T ss_dssp             ------------------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             h------------hhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            0            011222233344556666666666666542  22100000            011235667889999


Q ss_pred             ChHHHHHHHHHHHHcCCCCCh----hhHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 036731          142 KLKNARELSQSLTRAGLMPNV----VTYNITIHALCNDEQMDKAHDLFLDMEVKG  192 (259)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  192 (259)
                      ++++|...|+++.+..  |+.    ..+..+..++.+.|++++|.+.++.+...+
T Consensus       162 ~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          162 AWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             CHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             cHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            9999999999998863  332    468888999999999999999999988773

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.27  E-value=3.6e-10  Score=84.40  Aligned_cols=165  Identities=10%  Similarity=0.044  Sum_probs=133.3

Q ss_pred             CCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh
Q 036731           83 QSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNV  162 (259)
Q Consensus        83 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  162 (259)
                      +.+...+..+...+...|++++|...|++....  .|+     +...+..+...+.+.|++++|...+++....  .|+.
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~-----~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~  184 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQ-----NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDT  184 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTS-----CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCc-----chhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcch
Confidence            445667778888999999999999999999875  344     5688999999999999999999999998765  3444


Q ss_pred             hhHHH-HHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc-cchHHHHHHHH
Q 036731          163 VTYNI-TIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVM-PYASILSIIVD  240 (259)
Q Consensus       163 ~~~~~-li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~  240 (259)
                      ..... ....+...++.+.|...+++..... +.+...+..+...+...|++++|...+.++.+.... .+...+..++.
T Consensus       185 ~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~  263 (287)
T 3qou_A          185 RYQGLVAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQE  263 (287)
T ss_dssp             HHHHHHHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHH
Confidence            33222 2233667788888999999988773 446788899999999999999999999999876433 23678899999


Q ss_pred             HHHHhcccCCcchhhhc
Q 036731          241 LLVKNEISLNSIPQFNR  257 (259)
Q Consensus       241 ~~~~~g~~~~a~~~~~~  257 (259)
                      .+...|+.++|...|++
T Consensus       264 ~~~~~g~~~~a~~~~r~  280 (287)
T 3qou_A          264 ILAALGTGDALASXYRR  280 (287)
T ss_dssp             HHHHHCTTCHHHHHHHH
T ss_pred             HHHHcCCCCcHHHHHHH
Confidence            99999999999988765

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.24  E-value=1.1e-10  Score=78.37  Aligned_cols=109  Identities=10%  Similarity=-0.079  Sum_probs=46.9

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC
Q 036731           63 YANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK  142 (259)
Q Consensus        63 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  142 (259)
                      ..|++++|+..++...... +-+...+..+..+|...|++++|++.|++..+.  .|+     +..+|..+..+|...|+
T Consensus         9 ~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~-----~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            9 SKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QER-----DPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             CHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT-----CHHHHHHHHHHHHHTTC
T ss_pred             HcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC-----CHHHHHHHHHHHHHcCc
Confidence            3444444444444443321 112233334444444455555555554444432  222     23444444455555555


Q ss_pred             hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhH
Q 036731          143 LKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDK  180 (259)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  180 (259)
                      +++|...|++..+.... +...|..+...+.+.|++++
T Consensus        81 ~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~  117 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDG  117 (150)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSS
T ss_pred             hHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHH
Confidence            55555555444443211 33344444444444444443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.24  E-value=9.9e-10  Score=87.35  Aligned_cols=194  Identities=12%  Similarity=0.011  Sum_probs=117.7

Q ss_pred             cCCHHHHHHHHHHHHhcC---ChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhc----CChhHHHHHHHHHHHcCCCCc
Q 036731           13 KPNTVTYNTIIDGLCKEG---FVDKAKELFLQMKDENINPNVVTYNSLIHGFCYA----NDGNEAEYLFIEMMDRGLQSD   85 (259)
Q Consensus        13 ~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----~~~~~a~~~~~~~~~~~~~~~   85 (259)
                      +.++.++..|...|.+.|   ++++|.+.|++..+.| .++...+..+...|...    +++++|...|++.. .|   +
T Consensus       173 ~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~  247 (452)
T 3e4b_A          173 NTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---Y  247 (452)
T ss_dssp             TTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---S
T ss_pred             cCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---C
Confidence            344456666777777777   7777777777777665 33444445555555444    57777777777766 32   4


Q ss_pred             hhhHHHHHHH-H--HHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC-----ChHHHHHHHHHHHHcC
Q 036731           86 VVTFNVIMDE-L--CKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG-----KLKNARELSQSLTRAG  157 (259)
Q Consensus        86 ~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~  157 (259)
                      ...+..|... +  ...+++++|...|++..+.|.         ...+..+...|. .|     ++++|...|++.. .|
T Consensus       248 ~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g~---------~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g  316 (452)
T 3e4b_A          248 PASWVSLAQLLYDFPELGDVEQMMKYLDNGRAADQ---------PRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR  316 (452)
T ss_dssp             THHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTTC---------HHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT
T ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCC---------HHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC
Confidence            4455555555 3  346777777777777766542         255666666665 44     7777777777666 32


Q ss_pred             CCCChhhHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCC
Q 036731          158 LMPNVVTYNITIHALCN----DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR----KNETSKVIELLRSMDKRNV  228 (259)
Q Consensus       158 ~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~  228 (259)
                         +...+..+...|..    ..++++|..+|++..+.|.   ......|...|..    ..+..+|..+++...+.|.
T Consensus       317 ---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~  389 (452)
T 3e4b_A          317 ---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT  389 (452)
T ss_dssp             ---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC
T ss_pred             ---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC
Confidence               44555555555554    3367777777777776652   2334444545443    3467777777777666653

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.24  E-value=2.6e-10  Score=78.70  Aligned_cols=162  Identities=14%  Similarity=0.041  Sum_probs=102.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH-H
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE-L   96 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~   96 (259)
                      .+......+.+.|++++|...|++..+.. +-+...+..+...+...|++++|...++......  |+...+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHH
Confidence            34556667777888888888887776542 3356677777777888888888888887766542  233332222211 1


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHhc
Q 036731           97 CKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP-NVVTYNITIHALCND  175 (259)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~  175 (259)
                      ...+....|...+++..+.  .|+     +...+..+..++...|++++|...|+++.+....+ +...+..+..++...
T Consensus        85 ~~~~~~~~a~~~~~~al~~--~P~-----~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~  157 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAA--NPD-----NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSAL  157 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHH--STT-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHH
T ss_pred             HhhcccchHHHHHHHHHHh--CCC-----CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHh
Confidence            1222223456677766653  333     45677777777777888888888877777654322 244667777777777


Q ss_pred             CChhHHHHHHHHHH
Q 036731          176 EQMDKAHDLFLDME  189 (259)
Q Consensus       176 ~~~~~a~~~~~~~~  189 (259)
                      |+.++|...|++..
T Consensus       158 g~~~~A~~~y~~al  171 (176)
T 2r5s_A          158 GQGNAIASKYRRQL  171 (176)
T ss_dssp             CSSCHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHH
Confidence            77777777776654

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.23  E-value=1.8e-10  Score=77.42  Aligned_cols=143  Identities=8%  Similarity=-0.027  Sum_probs=80.0

Q ss_pred             HHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHH
Q 036731           24 DGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMD  103 (259)
Q Consensus        24 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  103 (259)
                      ..+...|++++|+..+....... +-+...+..+...|.+.|++++|.+.|++..+.... +..+|..+..+|...|+++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchH
Confidence            34445566666666666655431 112344455666666667777777777666665322 4566666666666777777


Q ss_pred             HHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHH-HHHHHHcCCCCChhhHHHHHHHHHhcC
Q 036731          104 EATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNAREL-SQSLTRAGLMPNVVTYNITIHALCNDE  176 (259)
Q Consensus       104 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~li~~~~~~~  176 (259)
                      +|+..|++..+.  .|+     +..++..+...|.+.|++++|... +++..+... -+..+|......+...|
T Consensus        83 ~A~~~~~~al~~--~p~-----~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P-~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           83 KAVECYRRSVEL--NPT-----QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFP-GSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHH--CTT-----CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHST-TCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHh--CCC-----CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhC
Confidence            777776666653  232     345666666666666666655443 355555421 13444544444444444

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.23  E-value=9.5e-10  Score=82.94  Aligned_cols=170  Identities=12%  Similarity=0.007  Sum_probs=90.6

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHcC----CCC-chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhH
Q 036731           53 TYNSLIHGFCYANDGNEAEYLFIEMMDRG----LQS-DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINI  127 (259)
Q Consensus        53 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  127 (259)
                      .|......|...|++++|...|.+..+..    ..+ -..+|+.+..+|...|++++|+..|++..+....... .....
T Consensus        38 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~-~~~~a  116 (307)
T 2ifu_A           38 EYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGT-PDTAA  116 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTC-HHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCC-HHHHH
Confidence            34444555666667776666666554321    100 1335566666666667776666666665432111110 00123


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-----ChhhHHHHHHHHHhcCChhHHHHHHHHHHhc----CCCCc-H
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP-----NVVTYNITIHALCNDEQMDKAHDLFLDMEVK----GVAPN-C  197 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~-~  197 (259)
                      .++..+..+|.. |++++|...|++..+.....     ...++..+...+...|++++|...|++....    +..++ .
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            456666666666 77777777666654421000     1235556666666677777777776666542    11111 1


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 036731          198 VIFTTLMPSFIRKNETSKVIELLRSMD  224 (259)
Q Consensus       198 ~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (259)
                      ..+..+..++...|++++|...+++..
T Consensus       196 ~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          196 KKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            244445555556677777777776665

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.23  E-value=2e-10  Score=79.32  Aligned_cols=159  Identities=12%  Similarity=0.073  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 036731           89 FNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNIT  168 (259)
Q Consensus        89 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  168 (259)
                      +..+...+...|++++|...|++..+.  .|+     +...+..+..++...|++++|...++......  |+...+...
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~-----~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~   79 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDE--LQS-----RGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLI   79 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHH--HHT-----SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CCC-----cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHH
Confidence            334445555566666666665554432  222     33555555666666666666666665554432  222222111


Q ss_pred             HHH-HHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCcc-chHHHHHHHHHHHHhc
Q 036731          169 IHA-LCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP-YASILSIIVDLLVKNE  246 (259)
Q Consensus       169 i~~-~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  246 (259)
                      ... +...+....|...+++..+.. +-+...+..+...+...|++++|...++++.+....+ +...+..+..++...|
T Consensus        80 ~~~~~~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g  158 (176)
T 2r5s_A           80 AKLELHQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALG  158 (176)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhC
Confidence            111 111122233555666655541 2235556666666666666666666666666554322 2445566666666666


Q ss_pred             ccCCcchhhhc
Q 036731          247 ISLNSIPQFNR  257 (259)
Q Consensus       247 ~~~~a~~~~~~  257 (259)
                      +.++|...|++
T Consensus       159 ~~~~A~~~y~~  169 (176)
T 2r5s_A          159 QGNAIASKYRR  169 (176)
T ss_dssp             SSCHHHHHHHH
T ss_pred             CCCcHHHHHHH
Confidence            66666666543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.23  E-value=1.1e-09  Score=81.77  Aligned_cols=168  Identities=8%  Similarity=-0.066  Sum_probs=128.9

Q ss_pred             CCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhH
Q 036731           48 NPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINI  127 (259)
Q Consensus        48 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  127 (259)
                      +.+...+..+...+...|++++|...|++....... +...+..+..++...|++++|...++++...  .|+     ..
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~-----~~  185 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQD-----TR  185 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCS-----HH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcc-----hH
Confidence            445666777888888999999999999999887433 5678888899999999999999999887654  333     22


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCC-CcHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVA-PNCVIFTTLMPS  206 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~  206 (259)
                      .........+...++.+.|...+++...... .+...+..+...+...|++++|...|+++....-. .+...+..+...
T Consensus       186 ~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P-~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~  264 (287)
T 3qou_A          186 YQGLVAQIELLXQAADTPEIQQLQQQVAENP-EDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEI  264 (287)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccCccHHHHHHHHhcCC-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHH
Confidence            3333344446677888888988988887643 36778888899999999999999999998876311 125678888999


Q ss_pred             HHhcCCHHHHHHHHHHHh
Q 036731          207 FIRKNETSKVIELLRSMD  224 (259)
Q Consensus       207 ~~~~~~~~~a~~~~~~~~  224 (259)
                      +...|+.++|...+++..
T Consensus       265 ~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          265 LAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHCTTCHHHHHHHHHH
T ss_pred             HHHcCCCCcHHHHHHHHH
Confidence            999999988888887654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.23  E-value=1.3e-08  Score=76.15  Aligned_cols=221  Identities=10%  Similarity=0.008  Sum_probs=170.8

Q ss_pred             HhcCC-hHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcC--ChhHHHHHHHHHHHcCCCCchhhHHHHHHHH----HHc
Q 036731           27 CKEGF-VDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN--DGNEAEYLFIEMMDRGLQSDVVTFNVIMDEL----CKN   99 (259)
Q Consensus        27 ~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~   99 (259)
                      .+.|. .++|+++++.+...+ +-+...|+.--..+...+  ++++++++++.+.....+ +..+|+.-..++    ...
T Consensus        43 ~~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l  120 (306)
T 3dra_A           43 MKAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELN  120 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHT
T ss_pred             HHcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhc
Confidence            34444 579999999998874 335667888778888888  999999999999987544 566777655555    555


Q ss_pred             ---CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChH--HHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731          100 ---RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLK--NARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus       100 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                         +++++++.+++++.+...+       +..+|+.-.-...+.|.++  +++..++++.+..+. |-..|+.-...+..
T Consensus       121 ~~~~~~~~EL~~~~~~l~~~pk-------ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~  192 (306)
T 3dra_A          121 NNDFDPYREFDILEAMLSSDPK-------NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFS  192 (306)
T ss_dssp             TTCCCTHHHHHHHHHHHHHCTT-------CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHS
T ss_pred             cccCCHHHHHHHHHHHHHhCCC-------CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHh
Confidence               7899999999999976433       5588888888888889888  999999999988655 77788777777777


Q ss_pred             cCC------hhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH-HHHHHHHHHhhCC--CccchHHHHHHHHHHHHh
Q 036731          175 DEQ------MDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETS-KVIELLRSMDKRN--VMPYASILSIIVDLLVKN  245 (259)
Q Consensus       175 ~~~------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~  245 (259)
                      .+.      ++++++.++++.... +-|...|+.+-..+.+.|+.. .+..+..++.+.+  -..++..+..+.+.|.+.
T Consensus       193 l~~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~  271 (306)
T 3dra_A          193 KKHLATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQ  271 (306)
T ss_dssp             SGGGCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHT
T ss_pred             ccccchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHcc
Confidence            676      889999999988774 447778888888888877744 3556666665432  134677888999999999


Q ss_pred             cccCCcchhhhcc
Q 036731          246 EISLNSIPQFNRQ  258 (259)
Q Consensus       246 g~~~~a~~~~~~~  258 (259)
                      |+.++|+++|+++
T Consensus       272 ~~~~~A~~~~~~l  284 (306)
T 3dra_A          272 KKYNESRTVYDLL  284 (306)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            9999999998764

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.22  E-value=1.2e-09  Score=89.39  Aligned_cols=154  Identities=10%  Similarity=-0.049  Sum_probs=110.0

Q ss_pred             cCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHH
Q 036731           29 EGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRL  108 (259)
Q Consensus        29 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  108 (259)
                      .|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+..+|...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478888999998887652 3357788888888999999999999999888764 23577888888899999999999999


Q ss_pred             HHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc---CChhHHHHHH
Q 036731          109 LDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND---EQMDKAHDLF  185 (259)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~~~a~~~~  185 (259)
                      +++..+..  |+     +...+..+..++...|++++|...+++..+... .+...+..+..++...   |+.++|.+.+
T Consensus        80 ~~~al~~~--p~-----~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~  151 (568)
T 2vsy_A           80 LQQASDAA--PE-----HPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQV  151 (568)
T ss_dssp             HHHHHHHC--TT-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHH
T ss_pred             HHHHHhcC--CC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHH
Confidence            98888753  33     457888889999999999999999998887643 2566788888888888   8899999999


Q ss_pred             HHHHhcC
Q 036731          186 LDMEVKG  192 (259)
Q Consensus       186 ~~~~~~~  192 (259)
                      ++..+.+
T Consensus       152 ~~al~~~  158 (568)
T 2vsy_A          152 RAAVAQG  158 (568)
T ss_dssp             HHHHHHT
T ss_pred             HHHHhcC
Confidence            8888763

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.22  E-value=9.2e-10  Score=90.13  Aligned_cols=148  Identities=11%  Similarity=-0.010  Sum_probs=118.5

Q ss_pred             CCCccccccccc--C-CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHH
Q 036731            2 ANGNREFGVVCK--P-NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMM   78 (259)
Q Consensus         2 ~~a~~~~~~~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~   78 (259)
                      ++|.+.|+...+  | +...|..+...+.+.|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..
T Consensus         6 ~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al   84 (568)
T 2vsy_A            6 PRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQQAS   84 (568)
T ss_dssp             ---------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            567777776653  3 57889999999999999999999999998763 4467889999999999999999999999999


Q ss_pred             HcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhc---CChHHHHHHHHHHHH
Q 036731           79 DRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKI---GKLKNARELSQSLTR  155 (259)
Q Consensus        79 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~  155 (259)
                      +... .+...+..+..++...|++++|.+.+++..+..  |+     +...+..+..++...   |+.++|...+++..+
T Consensus        85 ~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~-----~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           85 DAAP-EHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL--PE-----EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             hcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            8743 367889999999999999999999999998753  33     458899999999999   999999999999988


Q ss_pred             cCC
Q 036731          156 AGL  158 (259)
Q Consensus       156 ~~~  158 (259)
                      .+.
T Consensus       157 ~~p  159 (568)
T 2vsy_A          157 QGV  159 (568)
T ss_dssp             HTC
T ss_pred             cCC
Confidence            753

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.16  E-value=5.6e-09  Score=78.12  Aligned_cols=169  Identities=11%  Similarity=0.031  Sum_probs=121.5

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhCC-CCCch----HhHHHHHHHHhhcCChhHHHHHHHHHHHcCCC-Cc----hhhHH
Q 036731           21 TIIDGLCKEGFVDKAKELFLQMKDEN-INPNV----VTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ-SD----VVTFN   90 (259)
Q Consensus        21 ~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~   90 (259)
                      ..+..+...|++++|..++++..+.. ..|+.    ..+..+...+...+++++|+..+++..+.... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            34677889999999999999988752 22232    13345667777888999999999999874322 22    23688


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCC-CCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCC-hhh
Q 036731           91 VIMDELCKNRKMDEATRLLDLMIQGGVR-PDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA----GLMPN-VVT  164 (259)
Q Consensus        91 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~  164 (259)
                      .+..+|...|++++|...|++..+.-.. +.. ......++..+..+|.+.|++++|...+++..+.    +..+. ..+
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~-~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~  238 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDN-EEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHH
Confidence            9999999999999999999988741100 000 1124458889999999999999999999887643    22222 456


Q ss_pred             HHHHHHHHHhcCC-hhHHHHHHHHHHh
Q 036731          165 YNITIHALCNDEQ-MDKAHDLFLDMEV  190 (259)
Q Consensus       165 ~~~li~~~~~~~~-~~~a~~~~~~~~~  190 (259)
                      |..+..++...|+ +++|...+++...
T Consensus       239 ~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          239 YYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            7777888888884 5888888777653

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.15  E-value=1.5e-08  Score=71.88  Aligned_cols=137  Identities=14%  Similarity=-0.013  Sum_probs=113.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ...+..+...+...|++++|...|++..    .|+...+..+...+...|++++|...+++..+.. +.+...+..+..+
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~   80 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHH
Confidence            3456667888899999999999998874    5688899999999999999999999999998874 3367889999999


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCC---------ccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDA---------FCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG  157 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  157 (259)
                      +...|++++|...|++..+.......         ........+..+..++...|++++|...|+...+..
T Consensus        81 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           81 YYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            99999999999999999875322110         011244788999999999999999999999998864

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.15  E-value=2.2e-08  Score=74.94  Aligned_cols=163  Identities=10%  Similarity=0.001  Sum_probs=121.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchh----HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC---
Q 036731           90 NVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEIN----IVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM-PN---  161 (259)
Q Consensus        90 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~---  161 (259)
                      ...+..+...|++++|..++++..+.....     ++    ...+..+...+...+++++|...+++..+.... ++   
T Consensus        79 ~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~  153 (293)
T 3u3w_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYH-----PEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCCC-----HHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHhccccCC-----hHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHH
Confidence            334677889999999999999988743211     12    223445777777888999999999999874322 22   


Q ss_pred             -hhhHHHHHHHHHhcCChhHHHHHHHHHHhc-----CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCcc
Q 036731          162 -VVTYNITIHALCNDEQMDKAHDLFLDMEVK-----GVAPN-CVIFTTLMPSFIRKNETSKVIELLRSMDKR----NVMP  230 (259)
Q Consensus       162 -~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~  230 (259)
                       ..+++.+...|...|++++|...++++.+.     +..+. ..++..+...|.+.|++++|...+++..+.    +..+
T Consensus       154 ~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~  233 (293)
T 3u3w_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHH
Confidence             226888999999999999999999998742     11222 347888899999999999999999987642    2222


Q ss_pred             -chHHHHHHHHHHHHhcc-cCCcchhhhc
Q 036731          231 -YASILSIIVDLLVKNEI-SLNSIPQFNR  257 (259)
Q Consensus       231 -~~~~~~~l~~~~~~~g~-~~~a~~~~~~  257 (259)
                       -..++..+..+|.+.|+ .++|++.|++
T Consensus       234 ~~~~~~~~lg~~~~~~g~~~~~A~~~~~~  262 (293)
T 3u3w_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             THHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCcHHHHHHHHHH
Confidence             26788899999999995 4888887764

>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=99.14  E-value=3e-08  Score=82.19  Aligned_cols=239  Identities=11%  Similarity=-0.014  Sum_probs=175.9

Q ss_pred             HHHHHHHHHHHhcC-------ChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHH-HHHHHHHHcCCCCchhh
Q 036731           17 VTYNTIIDGLCKEG-------FVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAE-YLFIEMMDRGLQSDVVT   88 (259)
Q Consensus        17 ~~~~~ll~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~   88 (259)
                      ..|...+..--..+       ..+++..+|+++... .+-+...|-..+..+...|+.++|. ++|++.... .+.+...
T Consensus       303 ~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~L  380 (679)
T 4e6h_A          303 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVL  380 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHH
Confidence            45666666544433       134566788888876 3557888988888888999999997 999999875 3446667


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCC---------CCCCc------cchhHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 036731           89 FNVIMDELCKNRKMDEATRLLDLMIQGGV---------RPDAF------CEINIVAYGCLIDGLCKIGKLKNARELSQSL  153 (259)
Q Consensus        89 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  153 (259)
                      |...+...-+.|+++.|.++|+++.+...         .|+..      ......+|...+....+.|+.+.|..+|...
T Consensus       381 wl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A  460 (679)
T 4e6h_A          381 AFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKC  460 (679)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77888888999999999999999876310         12100      0002357888899989999999999999999


Q ss_pred             HHcCCCCChhhHHHHHHHHHhc-CChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc--c
Q 036731          154 TRAGLMPNVVTYNITIHALCND-EQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVM--P  230 (259)
Q Consensus       154 ~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~  230 (259)
                      .+.-.......|...+..-.+. ++.+.|..+|+...+. .+-+...+...+......|+.+.|..+|++.......  -
T Consensus       461 ~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~  539 (679)
T 4e6h_A          461 RRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHL  539 (679)
T ss_dssp             HHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTH
T ss_pred             HHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHH
Confidence            8761112334454443333344 4589999999999887 3446667778888888899999999999999876432  2


Q ss_pred             chHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          231 YASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       231 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      ....|...+..-.+.|+.+.+.++.+++
T Consensus       540 ~~~lw~~~~~fE~~~G~~~~~~~v~~R~  567 (679)
T 4e6h_A          540 LKMIFQKVIFFESKVGSLNSVRTLEKRF  567 (679)
T ss_dssp             HHHHHHHHHHHHHHTCCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4568888888888999999888887764

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.10  E-value=6.4e-09  Score=78.40  Aligned_cols=197  Identities=10%  Similarity=0.056  Sum_probs=141.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhC----CCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHc----CCCC-ch
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDE----NINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDR----GLQS-DV   86 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~   86 (259)
                      ..|+.....|...|++++|...|.+..+.    +-.+ -..+|+.+...|...|++++|+..|++..+.    |-.. ..
T Consensus        37 ~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a  116 (307)
T 2ifu_A           37 SEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAA  116 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            46888888899999999999999887653    2111 1457888889999999999999999987643    2111 24


Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCC-
Q 036731           87 VTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA----GLMPN-  161 (259)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-  161 (259)
                      .++..+..+|.. |++++|+..|++.......... ......++..+...|.+.|++++|...|++..+.    +..+. 
T Consensus       117 ~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~-~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  194 (307)
T 2ifu_A          117 MALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEER-LRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTC  194 (307)
T ss_dssp             HHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCC-hhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHH
Confidence            577888888988 9999999999987653211110 0112468889999999999999999999998763    11111 


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc------HHHHHHHHHHHHhcCCHHHHHHH
Q 036731          162 VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPN------CVIFTTLMPSFIRKNETSKVIEL  219 (259)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~------~~~~~~l~~~~~~~~~~~~a~~~  219 (259)
                      ...+..+..++...|++++|...|++.. .  .|+      ......++.++ ..|+.+.+.++
T Consensus       195 ~~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          195 YKKCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            2256666777888899999999999988 4  332      12344555555 56777666663

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.10  E-value=2.3e-08  Score=74.78  Aligned_cols=172  Identities=10%  Similarity=0.012  Sum_probs=123.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc-----hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCC---Cc--h
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN-----VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ---SD--V   86 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---~~--~   86 (259)
                      ..+...+..+...|++++|.+.+.+..+.....+     ...+..+...+...|++++|+..+++..+....   +.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3455667788899999999999998876532211     122344566678889999999999998754211   11  4


Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC----CCC-
Q 036731           87 VTFNVIMDELCKNRKMDEATRLLDLMIQG-GVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG----LMP-  160 (259)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-  160 (259)
                      .+++.+...|...|++++|...+++..+. ...++. ......++..+..+|...|++++|...+++..+..    ... 
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~-~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDN-EEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCcc-ccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            57888999999999999999999988732 111211 11133688999999999999999999999876531    111 


Q ss_pred             ChhhHHHHHHHHHhcCChhHH-HHHHHHHH
Q 036731          161 NVVTYNITIHALCNDEQMDKA-HDLFLDME  189 (259)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a-~~~~~~~~  189 (259)
                      -..+|..+..++...|++++| ...+++..
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            145677788888888998888 66676654

>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=99.09  E-value=4.3e-08  Score=81.27  Aligned_cols=215  Identities=12%  Similarity=0.005  Sum_probs=162.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHH-HHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCC---------CC
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAK-ELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGL---------QS   84 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~---------~~   84 (259)
                      +...|-..+..+.+.|+.++|. ++|++.... .+.+...|-..+....+.|+++.|.++|+.+.....         .|
T Consensus       342 ~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p  420 (679)
T 4e6h_A          342 APEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDP  420 (679)
T ss_dssp             CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHST
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccC
Confidence            6677888888888899999997 999999875 455666777888888999999999999999886410         13


Q ss_pred             ------------chhhHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCCCCCccchhHHHHHHHHHHHHhc-CChHHHHHHH
Q 036731           85 ------------DVVTFNVIMDELCKNRKMDEATRLLDLMIQG-GVRPDAFCEINIVAYGCLIDGLCKI-GKLKNARELS  150 (259)
Q Consensus        85 ------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~  150 (259)
                                  ...+|...++...+.|..+.|..+|.+..+. +..       +...|...+..-.+. ++.+.|..+|
T Consensus       421 ~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~-------~~~lyi~~A~lE~~~~~d~e~Ar~if  493 (679)
T 4e6h_A          421 TNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLV-------TPDIYLENAYIEYHISKDTKTACKVL  493 (679)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGS-------CTHHHHHHHHHHHTTTSCCHHHHHHH
T ss_pred             cchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCC-------ChHHHHHHHHHHHHhCCCHHHHHHHH
Confidence                        2346888888888999999999999999875 211       124454444443444 4599999999


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC--cHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 036731          151 QSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAP--NCVIFTTLMPSFIRKNETSKVIELLRSMDKRNV  228 (259)
Q Consensus       151 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  228 (259)
                      +...+. .+-+...|...+......|+.+.|..+|++.......+  ....|...+..-.+.|+.+.+.++.+++.+.. 
T Consensus       494 e~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~-  571 (679)
T 4e6h_A          494 ELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF-  571 (679)
T ss_dssp             HHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS-
T ss_pred             HHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            999886 33356667788888888999999999999998773211  34678888888899999999999999998763 


Q ss_pred             ccchHHHHHHHH
Q 036731          229 MPYASILSIIVD  240 (259)
Q Consensus       229 ~~~~~~~~~l~~  240 (259)
                       |+......+++
T Consensus       572 -P~~~~~~~f~~  582 (679)
T 4e6h_A          572 -PEVNKLEEFTN  582 (679)
T ss_dssp             -TTCCHHHHHHH
T ss_pred             -CCCcHHHHHHH
Confidence             44344444433

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.09  E-value=7.9e-08  Score=71.87  Aligned_cols=171  Identities=10%  Similarity=-0.014  Sum_probs=122.5

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC-
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGL---MPN-  161 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~-  161 (259)
                      ...+...+..+...|++++|.+.+.+..+....... .......+..+...+...|++++|...+++..+...   .+. 
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  153 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPE-FQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHH-HHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChh-HHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHH
Confidence            345566778888999999999999887765322110 011223345566777888999999999998875321   111 


Q ss_pred             -hhhHHHHHHHHHhcCChhHHHHHHHHHHh---c-CCCC--cHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC----Ccc
Q 036731          162 -VVTYNITIHALCNDEQMDKAHDLFLDMEV---K-GVAP--NCVIFTTLMPSFIRKNETSKVIELLRSMDKRN----VMP  230 (259)
Q Consensus       162 -~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~-~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~  230 (259)
                       ..+|+.+...|...|++++|...+++..+   . +-.+  ...++..+...|...|++++|...+++..+..    ...
T Consensus       154 ~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~  233 (293)
T 2qfc_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHH
Confidence             34788889999999999999999998873   2 1111  12578888999999999999999999876431    111


Q ss_pred             -chHHHHHHHHHHHHhcccCCc-chhhhc
Q 036731          231 -YASILSIIVDLLVKNEISLNS-IPQFNR  257 (259)
Q Consensus       231 -~~~~~~~l~~~~~~~g~~~~a-~~~~~~  257 (259)
                       -..++..+..+|.+.|+.++| ...|++
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~  262 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence             266788899999999999999 665553

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.08  E-value=2.8e-08  Score=70.48  Aligned_cols=128  Identities=13%  Similarity=-0.128  Sum_probs=101.1

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHH
Q 036731           53 TYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC  132 (259)
Q Consensus        53 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  132 (259)
                      .+..+...+...|++++|...|++..    .|+...+..+..++...|++++|...+++.....  |+     +...+..
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~-----~~~~~~~   76 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KH-----LAVAYFQ   76 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cc-----chHHHHH
Confidence            35556677888899999999987663    5677888889999999999999999999888753  33     4578888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCC---------------ChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          133 LIDGLCKIGKLKNARELSQSLTRAGLMP---------------NVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      +..++...|++++|...|++..+.....               ....+..+..++...|++++|...|+...+.
T Consensus        77 lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           77 RGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            9999999999999999999988753211               1256777778888888888888888888766

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.03  E-value=1.4e-08  Score=71.28  Aligned_cols=161  Identities=11%  Similarity=-0.081  Sum_probs=94.6

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC
Q 036731           63 YANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK  142 (259)
Q Consensus        63 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  142 (259)
                      ..|++++|.+.++.+.. .......++..+...+...|++++|...+++.......... ......++..+...+...|+
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGD-HTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCC-HHHHHHHHHHHHHHHHHTTC
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCC-cHHHHHHHHHHHHHHHHcCC
Confidence            45666666664433332 12224556666666777777777777777665541111000 11244667777777778888


Q ss_pred             hHHHHHHHHHHHHc----CCCC--ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC---CCCc--HHHHHHHHHHHHhcC
Q 036731          143 LKNARELSQSLTRA----GLMP--NVVTYNITIHALCNDEQMDKAHDLFLDMEVKG---VAPN--CVIFTTLMPSFIRKN  211 (259)
Q Consensus       143 ~~~a~~~~~~~~~~----~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~p~--~~~~~~l~~~~~~~~  211 (259)
                      +++|...+++....    +-.|  ....+..+...+...|++++|...+++.....   -.+.  ..++..+...+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            88888777776543    1111  13346666777777888888888887765320   0111  234566777788888


Q ss_pred             CHHHHHHHHHHHhh
Q 036731          212 ETSKVIELLRSMDK  225 (259)
Q Consensus       212 ~~~~a~~~~~~~~~  225 (259)
                      ++++|.+.+++..+
T Consensus       162 ~~~~A~~~~~~al~  175 (203)
T 3gw4_A          162 NLLEAQQHWLRARD  175 (203)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            88888888877654

>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=99.03  E-value=3.6e-08  Score=66.80  Aligned_cols=131  Identities=11%  Similarity=0.004  Sum_probs=103.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ...|..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            4567788888999999999999999988763 4467888888899999999999999999988774 3367788888999


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHH--HHHHHHHHhcCChHHHHHHHHHHHH
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAY--GCLIDGLCKIGKLKNARELSQSLTR  155 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~  155 (259)
                      +...|++++|...+++..+..  |+     +...+  ...+..+...|++++|...+.....
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~--p~-----~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVK--PH-----DKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS--TT-----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            999999999999999988753  32     22344  3444447778889999888877643

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.02  E-value=8.5e-07  Score=66.38  Aligned_cols=214  Identities=8%  Similarity=-0.026  Sum_probs=165.2

Q ss_pred             CHHHHHHHHHHHHhcC--ChHHHHHHHHHHhhCCCCCchHhHHHHHHHH----hhc---CChhHHHHHHHHHHHcCCCCc
Q 036731           15 NTVTYNTIIDGLCKEG--FVDKAKELFLQMKDENINPNVVTYNSLIHGF----CYA---NDGNEAEYLFIEMMDRGLQSD   85 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~----~~~---~~~~~a~~~~~~~~~~~~~~~   85 (259)
                      +..+|+.--..+...|  ++++++++++.+.... +-+..+|+.--..+    ...   +++++++.+++.+.+...+ +
T Consensus        66 ~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pk-n  143 (306)
T 3dra_A           66 HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPK-N  143 (306)
T ss_dssp             CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTT-C
T ss_pred             HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCCC-C
Confidence            4566888778888888  9999999999998864 33566676555444    444   7899999999999987544 8


Q ss_pred             hhhHHHHHHHHHHcCCHH--HHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC------hHHHHHHHHHHHHcC
Q 036731           86 VVTFNVIMDELCKNRKMD--EATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK------LKNARELSQSLTRAG  157 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~  157 (259)
                      ..+|+.-..++.+.|.++  ++++.++++.+.+..       |-..|+.-.......+.      ++++++.++++....
T Consensus       144 y~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-------N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~  216 (306)
T 3dra_A          144 HHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-------NNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC  216 (306)
T ss_dssp             HHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-------CHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-------CHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC
Confidence            888988888888889888  999999999986544       55788887777777776      899999999998876


Q ss_pred             CCCChhhHHHHHHHHHhcCChhH-HHHHHHHHHhcC--CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHH
Q 036731          158 LMPNVVTYNITIHALCNDEQMDK-AHDLFLDMEVKG--VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASI  234 (259)
Q Consensus       158 ~~~~~~~~~~li~~~~~~~~~~~-a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  234 (259)
                      +. |...|+.+-..+.+.|+... +..+..++.+.+  -..+...+..+...+.+.|+.++|.++++.+.+.--+.....
T Consensus       217 p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~~Dpir~~y  295 (306)
T 3dra_A          217 PQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSKYNPIRSNF  295 (306)
T ss_dssp             SS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHH
T ss_pred             CC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhccChHHHHH
Confidence            54 88889888888888887544 556777665532  134778899999999999999999999999986421334445


Q ss_pred             HHHH
Q 036731          235 LSII  238 (259)
Q Consensus       235 ~~~l  238 (259)
                      |...
T Consensus       296 W~~~  299 (306)
T 3dra_A          296 WDYQ  299 (306)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5433

>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=99.02  E-value=4.2e-09  Score=78.35  Aligned_cols=195  Identities=10%  Similarity=-0.005  Sum_probs=122.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +...+..+...+.+.|++++|...|++..+.. +.+...|..+..++.+.|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            56778888888888999999999998888763 3367778888888888999999999988888763 235677788888


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      ++...|++++|...|++..+.+  |+     +...+...+....+.   .++ .-+..........+......+ ..+ .
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~--p~-----~~~~~~~~~~~~~~~---~~~-~~~~~~~~~~~~~~~~i~~~l-~~l-~  147 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA--KE-----QRLNFGDDIPSALRI---AKK-KRWNSIEERRIHQESELHSYL-TRL-I  147 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH--HH-----TTCCCCSHHHHHHHH---HHH-HHHHHHHHTCCCCCCHHHHHH-HHH-H
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--cc-----chhhHHHHHHHHHHH---HHH-HHHHHHHHHHHhhhHHHHHHH-HHH-H
Confidence            8888999999998888876542  11     101122222222211   111 122223333333333333333 332 2


Q ss_pred             cCChhHHHHHHHHHHhcCCCCcHH-HHHHHHHHHHhc-CCHHHHHHHHHHHhhC
Q 036731          175 DEQMDKAHDLFLDMEVKGVAPNCV-IFTTLMPSFIRK-NETSKVIELLRSMDKR  226 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~-~~~~~a~~~~~~~~~~  226 (259)
                      .|++++|.+.++...+.  .|+.. ....+...+.+. +.+++|.++|.++.+.
T Consensus       148 ~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          148 AAERERELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHHHHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            57888888888777655  44433 333333334443 5677888888877653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.01  E-value=5e-08  Score=62.52  Aligned_cols=118  Identities=14%  Similarity=0.084  Sum_probs=97.3

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      +...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   85 (125)
T 1na0_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHH
Confidence            35788899999999999999999999998764 2367788889999999999999999999998763 446788889999


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhc
Q 036731          206 SFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNE  246 (259)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  246 (259)
                      .+...|++++|...++++.+.. +.+...+..+..++...|
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhcc
Confidence            9999999999999999988764 234556666666665543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.01  E-value=3.9e-08  Score=63.01  Aligned_cols=116  Identities=16%  Similarity=0.186  Sum_probs=95.8

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ..+|..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|..+++++.+.. +.+..++..+..+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            6788889999999999999999999998763 4467788899999999999999999999998874 3367788899999


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhc
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKI  140 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  140 (259)
                      +...|++++|...++++.+..  |+     +...+..+...+...
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~--~~-----~~~~~~~l~~~~~~~  124 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD--PN-----NAEAKQNLGNAKQKQ  124 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC--CC-----cHHHHHHHHHHHHhc
Confidence            999999999999999988753  33     345666665555443

>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=99.01  E-value=4.7e-08  Score=66.22  Aligned_cols=127  Identities=9%  Similarity=0.026  Sum_probs=65.4

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHH
Q 036731           53 TYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC  132 (259)
Q Consensus        53 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  132 (259)
                      .+..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|...+++..+..  |+     +..++..
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~-----~~~~~~~   86 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KK-----YIKGYYR   86 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cc-----cHHHHHH
Confidence            34455555566666666666666665542 2245555555666666666666666666555432  22     2345555


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHH--HHHHHHhcCChhHHHHHHHHH
Q 036731          133 LIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNI--TIHALCNDEQMDKAHDLFLDM  188 (259)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--li~~~~~~~~~~~a~~~~~~~  188 (259)
                      +..++...|++++|...+++..+.... +...+..  ....+...|++++|...+...
T Consensus        87 ~a~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           87 RAASNMALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            556666666666666666655554211 2222222  222244445555555555443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.01  E-value=4.6e-08  Score=63.60  Aligned_cols=120  Identities=8%  Similarity=-0.062  Sum_probs=100.2

Q ss_pred             cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHH
Q 036731           13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVI   92 (259)
Q Consensus        13 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   92 (259)
                      ..+...|..+...+.+.|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            4467889999999999999999999999998763 3467888999999999999999999999998874 3367888899


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC
Q 036731           93 MDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG  141 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  141 (259)
                      ..++...|++++|.+.|++..+..  |.     +...+..+..++...|
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~--p~-----~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD--SS-----CKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--GG-----GTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC--CC-----chHHHHHHHHHHHHhc
Confidence            999999999999999999988753  22     3467777777776655

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.00  E-value=6.2e-08  Score=62.96  Aligned_cols=121  Identities=5%  Similarity=-0.098  Sum_probs=101.5

Q ss_pred             chhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHH
Q 036731          124 EINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTL  203 (259)
Q Consensus       124 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  203 (259)
                      ..+...+..+...+...|++++|...+++..+... .+...+..+..++...|++++|...+++..+.. +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            44778999999999999999999999999987642 367788889999999999999999999998763 3467888899


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcc
Q 036731          204 MPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEI  247 (259)
Q Consensus       204 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  247 (259)
                      ..++...|++++|.+.+++..+.. +.+...+..+..++...|+
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhcC
Confidence            999999999999999999988764 2355677777777776653

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.00  E-value=2.2e-08  Score=70.35  Aligned_cols=164  Identities=10%  Similarity=-0.066  Sum_probs=117.0

Q ss_pred             HHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc----CCC-CchhhHHHHHHHHHHcC
Q 036731           26 LCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR----GLQ-SDVVTFNVIMDELCKNR  100 (259)
Q Consensus        26 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~  100 (259)
                      ....|++++|.++++.+... .......+..+...+...|++++|...+++....    +.. ....++..+...+...|
T Consensus         2 ~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            2 AFEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             -----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             ccccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            34689999999966555432 2245678888999999999999999999988752    222 23456788889999999


Q ss_pred             CHHHHHHHHHHHHhCCC-CCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCC-CChhhHHHHHHHHHh
Q 036731          101 KMDEATRLLDLMIQGGV-RPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA----GLM-PNVVTYNITIHALCN  174 (259)
Q Consensus       101 ~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~  174 (259)
                      ++++|...+++...... .++. .......+..+...+...|++++|...+++..+.    +.. ....++..+...+..
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~-~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~  159 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPED-PLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQ  159 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCC-HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCcc-HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHH
Confidence            99999999988765311 1100 0113567888999999999999999999987643    111 112345778888999


Q ss_pred             cCChhHHHHHHHHHHhc
Q 036731          175 DEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~  191 (259)
                      .|++++|...+++..+.
T Consensus       160 ~g~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          160 EKNLLEAQQHWLRARDI  176 (203)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHH
Confidence            99999999998876643

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.00  E-value=6.1e-08  Score=62.65  Aligned_cols=121  Identities=7%  Similarity=-0.075  Sum_probs=102.6

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      +...+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...+++..... +.+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            56788899999999999999999999998764 2367788889999999999999999999998763 345778889999


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccC
Q 036731          206 SFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISL  249 (259)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  249 (259)
                      .+...|++++|...+++..+.. +.+...+..+..++...|+.+
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~  131 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREAP  131 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcCC
Confidence            9999999999999999988764 235677888888888888753

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.99  E-value=4.3e-08  Score=63.52  Aligned_cols=98  Identities=11%  Similarity=-0.023  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ...|......+.+.|++++|++.|++..+.. +.+...|..+..++.+.|++++|+..+++..+... .+...|..+..+
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~   90 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDS-KFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh-hhhHHHHHHHHH
Confidence            4678889999999999999999999998763 45788999999999999999999999999998743 367889999999


Q ss_pred             HHHcCCHHHHHHHHHHHHhC
Q 036731           96 LCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~  115 (259)
                      +...|++++|.+.|++..+.
T Consensus        91 ~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH
Confidence            99999999999999999875

>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=98.99  E-value=2.7e-07  Score=69.91  Aligned_cols=229  Identities=11%  Similarity=0.023  Sum_probs=165.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcC-ChhHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN-DGNEAEYLFIEMMDRGLQSDVVTFNVIMDELC   97 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   97 (259)
                      ++.+-....+.+..++|+++++.+...+ +-+..+|+.--..+...| ++++++.+++.+.....+ +..+|+.-..++.
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~  134 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLD  134 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHH
Confidence            3444444455556689999999999874 335667787777777778 599999999999987544 7788888777777


Q ss_pred             Hc-C-CHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChH--------HHHHHHHHHHHcCCCCChhhHHH
Q 036731           98 KN-R-KMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLK--------NARELSQSLTRAGLMPNVVTYNI  167 (259)
Q Consensus        98 ~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~  167 (259)
                      .. + ++++++++++++.+..  |.     +..+|+.-.-...+.|.++        ++++.++++.+..+. |...|+.
T Consensus       135 ~l~~~~~~~EL~~~~k~L~~d--pk-----Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~  206 (349)
T 3q7a_A          135 RISPQDPVSEIEYIHGSLLPD--PK-----NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGW  206 (349)
T ss_dssp             HHCCSCCHHHHHHHHHHTSSC--TT-----CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             HhcCCChHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHH
Confidence            76 7 8899999999998754  33     4577877776766666666        899999999987655 7788888


Q ss_pred             HHHHHHhcCC-------hhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH--------------------HHHHHHH
Q 036731          168 TIHALCNDEQ-------MDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNET--------------------SKVIELL  220 (259)
Q Consensus       168 li~~~~~~~~-------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~--------------------~~a~~~~  220 (259)
                      ....+.+.+.       ++++++.+++..... +-|...|+.+-..+.+.|+.                    .......
T Consensus       207 R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  285 (349)
T 3q7a_A          207 RWYLRVSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFG  285 (349)
T ss_dssp             HHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------
T ss_pred             HHHHHHhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHH
Confidence            8888777776       678888888888763 34667777766666665543                    3344444


Q ss_pred             HHHhhCC-----CccchHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          221 RSMDKRN-----VMPYASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       221 ~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      .++...+     -.++...+..+++.|...|+.++|.++++.+
T Consensus       286 ~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l  328 (349)
T 3q7a_A          286 FPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKL  328 (349)
T ss_dssp             CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            4443322     1357778889999999999999999888764

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.98  E-value=4.4e-08  Score=63.48  Aligned_cols=111  Identities=10%  Similarity=-0.059  Sum_probs=93.3

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      ....+......|.+.|++++|...|++..+... .+...|..+..++...|++++|...+++..+.+ +.+...|..+..
T Consensus        12 ~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~   89 (126)
T 4gco_A           12 LAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDP-ENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAA   89 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHH
Confidence            457888899999999999999999999988753 367889999999999999999999999998874 446788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHH
Q 036731          206 SFIRKNETSKVIELLRSMDKRNVMPYASILSIIV  239 (259)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  239 (259)
                      ++...|++++|.+.|++.++..+ -+......+.
T Consensus        90 ~~~~~~~~~~A~~~~~~al~l~P-~~~~a~~~l~  122 (126)
T 4gco_A           90 CLVAMREWSKAQRAYEDALQVDP-SNEEAREGVR  122 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCc-CCHHHHHHHH
Confidence            99999999999999999987642 2444444443

>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=98.98  E-value=8.4e-09  Score=76.71  Aligned_cols=192  Identities=10%  Similarity=-0.015  Sum_probs=129.9

Q ss_pred             chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHH
Q 036731           50 NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVA  129 (259)
Q Consensus        50 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  129 (259)
                      +...+..+...+...|++++|...|++...... .+...|..+..+|...|++++|...+++..+.  .|+     +...
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~-----~~~~   74 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQ-----SVKA   74 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTT-----CHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCC-----CHHH
Confidence            556788888999999999999999999998743 37788999999999999999999999998875  444     5688


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 036731          130 YGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR  209 (259)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  209 (259)
                      +..+..++...|++++|...|++..+.+.. +...+...+....+.   ..+.. +..........+......+.. + .
T Consensus        75 ~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~l~~-l-~  147 (281)
T 2c2l_A           75 HFFLGQCQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSYLTR-L-I  147 (281)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHHHHH-H-H
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHHHHH-H-H
Confidence            999999999999999999999998765311 111222222222211   11111 222233333444444444433 2 3


Q ss_pred             cCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHh-cccCCcchhhhc
Q 036731          210 KNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKN-EISLNSIPQFNR  257 (259)
Q Consensus       210 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~  257 (259)
                      .|++++|.+.+++..+.. +.+......+...+.+. +..++|.++|.+
T Consensus       148 ~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~  195 (281)
T 2c2l_A          148 AAERERELEECQRNHEGH-EDDGHIRAQQACIEAKHDKYMADMDELFSQ  195 (281)
T ss_dssp             HHHHHHHHTTTSGGGTTT-SCHHHHTHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhccc-cchhhhhhHHHHHHHHHHHHHHHHHHHHHh
Confidence            689999999998887653 22334444444445554 556777777754

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.97  E-value=3.7e-08  Score=63.74  Aligned_cols=121  Identities=13%  Similarity=0.000  Sum_probs=101.9

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      .+...+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...++...+.. +.+...+..+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~   87 (131)
T 2vyi_A           10 AEAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHH
Confidence            456788889999999999999999999998763 4467888899999999999999999999998874 33577888899


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCCh
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKL  143 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  143 (259)
                      .++...|++++|...+++..+..  |+     +...+..+..++...|++
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~~~--p~-----~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALELD--PD-----NETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS--TT-----CHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcC--cc-----chHHHHHHHHHHHHHhcC
Confidence            99999999999999999988753  33     447788888888877764

>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=98.97  E-value=2.3e-08  Score=76.32  Aligned_cols=144  Identities=10%  Similarity=-0.023  Sum_probs=108.7

Q ss_pred             CCcccccccc--cC-CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc--------------hHhHHHHHHHHhhcC
Q 036731            3 NGNREFGVVC--KP-NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN--------------VVTYNSLIHGFCYAN   65 (259)
Q Consensus         3 ~a~~~~~~~~--~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~li~~~~~~~   65 (259)
                      .|...++..+  .| +...|..+...+.+.|++++|...|++..+..-...              ...|..+..++.+.|
T Consensus       131 ~A~~~~~~a~~~~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g  210 (336)
T 1p5q_A          131 KAKESWEMNSEEKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQ  210 (336)
T ss_dssp             CCCCGGGCCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             cccchhcCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            3445555443  23 456788888889999999999999999887631111              478888888899999


Q ss_pred             ChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHH
Q 036731           66 DGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKN  145 (259)
Q Consensus        66 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  145 (259)
                      ++++|+..+++..+.. +.+...+..+..+|...|++++|...|++..+.  .|+     +..++..+..++...|+.++
T Consensus       211 ~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~-----~~~a~~~l~~~~~~~~~~~~  282 (336)
T 1p5q_A          211 AFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPN-----NKAAKTQLAVCQQRIRRQLA  282 (336)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSS-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCC-----CHHHHHHHHHHHHHHHHHHH
Confidence            9999999999888774 336778888888999999999999999888875  333     45788888888888888887


Q ss_pred             H-HHHHHHHH
Q 036731          146 A-RELSQSLT  154 (259)
Q Consensus       146 a-~~~~~~~~  154 (259)
                      | ...|+.|.
T Consensus       283 a~~~~~~~~~  292 (336)
T 1p5q_A          283 REKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7 44566554

>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=98.95  E-value=2.8e-08  Score=68.39  Aligned_cols=121  Identities=11%  Similarity=0.085  Sum_probs=81.1

Q ss_pred             HhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH-HHHcCCH--H
Q 036731           27 CKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE-LCKNRKM--D  103 (259)
Q Consensus        27 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~  103 (259)
                      ...|++++|...++...+.. +.+...|..+...+...|++++|...|++...... .+...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG-ENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCCcchH
Confidence            34667777777777776653 34566777777777788888888888877776532 255566666666 6677777  7


Q ss_pred             HHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          104 EATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       104 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      +|...+++..+..  |+     +...+..+..++...|++++|...|++..+.
T Consensus        99 ~A~~~~~~al~~~--p~-----~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALD--SN-----EITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC--CC-----cHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            8888877777643  32     3466777777777788888888888777765

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.95  E-value=4.9e-08  Score=65.31  Aligned_cols=100  Identities=14%  Similarity=0.018  Sum_probs=88.9

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      +...+..+...+.+.|++++|...|++...... .+...|..+..++...|++++|...|++..... +-++..|..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDF-YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            667888999999999999999999999998753 367889999999999999999999999999873 335678889999


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCC
Q 036731          206 SFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      ++...|++++|...|++..+..
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999998764

>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=98.94  E-value=1.5e-08  Score=69.74  Aligned_cols=121  Identities=6%  Similarity=0.026  Sum_probs=87.1

Q ss_pred             hhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHH-HHhc
Q 036731           62 CYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDG-LCKI  140 (259)
Q Consensus        62 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~  140 (259)
                      ...|++++|...++...... +.+...+..+..+|...|++++|...|++..+..  |+     +...+..+..+ +...
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~-----~~~~~~~la~~l~~~~   92 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GE-----NAELYAALATVLYYQA   92 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CS-----CHHHHHHHHHHHHHHT
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CC-----CHHHHHHHHHHHHHhc
Confidence            45678888888888877763 3366778888888888888888888888877643  32     34677777777 6778


Q ss_pred             CCh--HHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          141 GKL--KNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       141 ~~~--~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      |++  ++|...+++..+... .+...+..+...+...|++++|...|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           93 SQHMTAQTRAMIDKALALDS-NEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             TTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             CCcchHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            887  888888888877642 24567777777888888888888888887766

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.92  E-value=4e-08  Score=65.77  Aligned_cols=100  Identities=14%  Similarity=0.037  Sum_probs=88.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +...+..+...+.+.|++++|...|++..... +-+...|..+..++...|++++|+..|++....... +...|..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHH
Confidence            45678888899999999999999999999874 447888999999999999999999999999987533 6788999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCC
Q 036731           95 ELCKNRKMDEATRLLDLMIQGG  116 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~  116 (259)
                      +|...|++++|...|++..+..
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999998753

>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=98.91  E-value=8.6e-08  Score=73.16  Aligned_cols=124  Identities=6%  Similarity=-0.110  Sum_probs=70.7

Q ss_pred             chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc--------------hhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 036731           50 NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD--------------VVTFNVIMDELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        50 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  115 (259)
                      +...+..+...+.+.|++++|...|++..+......              ...|..+..+|.+.|++++|+..+++..+.
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            345566666677777777777777777766532211              345555666666666666666666665553


Q ss_pred             CCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHH
Q 036731          116 GVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKA  181 (259)
Q Consensus       116 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  181 (259)
                      .  |+     +...+..+..+|...|++++|...|++..+... -+...+..+..++...|+.+++
T Consensus       226 ~--p~-----~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          226 D--SN-----NEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             C--TT-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHHHHHHHH
T ss_pred             C--CC-----cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHH
Confidence            2  22     345555666666666666666666666555432 1344555555555555555555

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.91  E-value=1.7e-07  Score=68.80  Aligned_cols=197  Identities=8%  Similarity=-0.039  Sum_probs=141.3

Q ss_pred             hcCChHHHHHHHHHHhhCCCCCchHhHHHH-------HHHHhhcCChhHHHHHHHHHHHcCCCCc---------------
Q 036731           28 KEGFVDKAKELFLQMKDENINPNVVTYNSL-------IHGFCYANDGNEAEYLFIEMMDRGLQSD---------------   85 (259)
Q Consensus        28 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------i~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------   85 (259)
                      ..++...|.+.|.++.... +-....|..+       ...+.+.++..+++..+..-.+  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            6899999999999998873 3356777777       4555555555666555554443  2221               


Q ss_pred             -------hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 036731           86 -------VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGL  158 (259)
Q Consensus        86 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  158 (259)
                             ......+...+...|++++|.++|+.+...+  |+     +. ....+...+.+.+++++|+..|+...... 
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~-----~~-~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-  165 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SE-----HL-VAWMKAVVYGAAERWTDVIDQVKSAGKWP-  165 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CH-----HH-HHHHHHHHHHHTTCHHHHHHHHTTGGGCS-
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--Cc-----hH-HHHHHHHHHHHcCCHHHHHHHHHHhhccC-
Confidence                   1233446677889999999999998876532  32     33 66777779999999999999998554431 


Q ss_pred             CCC--hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHH
Q 036731          159 MPN--VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPN--CVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASI  234 (259)
Q Consensus       159 ~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  234 (259)
                      .|.  ...+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|...|+++...+  |+...
T Consensus       166 d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~--P~~~~  243 (282)
T 4f3v_A          166 DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH--PEPKV  243 (282)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--CCHHH
T ss_pred             CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHH
Confidence            111  23677788899999999999999999985543253  3466677788899999999999999999874  44444


Q ss_pred             HHHH
Q 036731          235 LSII  238 (259)
Q Consensus       235 ~~~l  238 (259)
                      ...|
T Consensus       244 ~~aL  247 (282)
T 4f3v_A          244 AAAL  247 (282)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4433

>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=98.87  E-value=4e-08  Score=65.65  Aligned_cols=98  Identities=12%  Similarity=-0.090  Sum_probs=58.4

Q ss_pred             hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHH
Q 036731           51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAY  130 (259)
Q Consensus        51 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  130 (259)
                      ...+..+...+...|++++|...|+....... .+...|..+..+|...|++++|+..|++.....  |+     +...+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~-----~~~~~   92 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLDH-YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD--IX-----EPRFP   92 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TT-----CTHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CC-----CchHH
Confidence            34455555566666666666666666665532 245556666666666666666666666665532  22     33566


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          131 GCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       131 ~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      ..+..+|...|++++|...|+...+.
T Consensus        93 ~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           93 FHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            66666666666666666666666553

>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=98.84  E-value=1.3e-07  Score=66.35  Aligned_cols=123  Identities=11%  Similarity=-0.026  Sum_probs=66.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCch----------------HhHHHHHHHHhhcCChhHHHHHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNV----------------VTYNSLIHGFCYANDGNEAEYLFIEMMD   79 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~li~~~~~~~~~~~a~~~~~~~~~   79 (259)
                      ...+..+...+.+.|++++|...|++..+.. +.+.                ..+..+..++...|++++|+..++...+
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~  116 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLK  116 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3345555666666666666666666665531 1111                4555555666666666666666666655


Q ss_pred             cCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHH
Q 036731           80 RGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNAR  147 (259)
Q Consensus        80 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  147 (259)
                      .. +.+...+..+..+|...|++++|...|++..+.  .|+     +..++..+..++...++.+++.
T Consensus       117 ~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~-----~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          117 ID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPN-----NLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             HS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STT-----CHHHHHHHHHHHHHHHHHHC--
T ss_pred             hC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCC-----cHHHHHHHHHHHHHHHHHHHHH
Confidence            42 224455555666666666666666666665543  222     2345555555555555444444

>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=98.84  E-value=7.5e-08  Score=64.29  Aligned_cols=99  Identities=11%  Similarity=-0.073  Sum_probs=86.6

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      +...+..+...+...|++++|...|+....... .+...|..+..++...|++++|...|++..... +.+...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDH-YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            567888899999999999999999999988753 377788889999999999999999999998773 335678888999


Q ss_pred             HHHhcCCHHHHHHHHHHHhhC
Q 036731          206 SFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      ++...|++++|...|++..+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999998764

>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=98.83  E-value=2e-07  Score=60.39  Aligned_cols=112  Identities=12%  Similarity=0.063  Sum_probs=80.0

Q ss_pred             hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHH
Q 036731           51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAY  130 (259)
Q Consensus        51 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  130 (259)
                      ...+..+...+.+.|++++|+..|++..+... .+...|..+..+|...|++++|+..+++..+...........-..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p-~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELDP-SNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            34567788888888999999999988887643 35778888889999999999999999887754221110000112467


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH
Q 036731          131 GCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTY  165 (259)
Q Consensus       131 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  165 (259)
                      ..+..++...|++++|+..|++....  .|+..+.
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~  119 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELV  119 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHH
Confidence            77788888888999999888887764  3454443

>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=98.83  E-value=1.4e-08  Score=71.35  Aligned_cols=149  Identities=16%  Similarity=0.061  Sum_probs=73.1

Q ss_pred             HHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc---------------hhh
Q 036731           24 DGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD---------------VVT   88 (259)
Q Consensus        24 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~   88 (259)
                      ......|+++++.+.|+.-.... ......+..+...+...|++++|...|++..+......               ...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~   90 (198)
T 2fbn_A           12 SGRENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISC   90 (198)
T ss_dssp             ----------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHH
Confidence            33444555555555554322210 11344566667777778888888888887776421111               145


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 036731           89 FNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNIT  168 (259)
Q Consensus        89 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  168 (259)
                      +..+..+|...|++++|+..+++..+.  .|+     +...+..+..+|...|++++|...|++..+... -+...+..+
T Consensus        91 ~~~la~~~~~~~~~~~A~~~~~~al~~--~p~-----~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l  162 (198)
T 2fbn_A           91 NLNLATCYNKNKDYPKAIDHASKVLKI--DKN-----NVKALYKLGVANMYFGFLEEAKENLYKAASLNP-NNLDIRNSY  162 (198)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STT-----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHh--Ccc-----cHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHH
Confidence            555555566666666666666655543  222     335555556666666666666666665555421 133344444


Q ss_pred             HHHHHhcCChhHH
Q 036731          169 IHALCNDEQMDKA  181 (259)
Q Consensus       169 i~~~~~~~~~~~a  181 (259)
                      ..++...++.+++
T Consensus       163 ~~~~~~~~~~~~~  175 (198)
T 2fbn_A          163 ELCVNKLKEARKK  175 (198)
T ss_dssp             HHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHH
Confidence            4444444444333

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.82  E-value=1.3e-06  Score=68.83  Aligned_cols=197  Identities=10%  Similarity=-0.021  Sum_probs=141.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhCCCCCc----------------hHhHHHHHHHHhhcCChhHHHHHHHHHHHcC-CCCc
Q 036731           23 IDGLCKEGFVDKAKELFLQMKDENINPN----------------VVTYNSLIHGFCYANDGNEAEYLFIEMMDRG-LQSD   85 (259)
Q Consensus        23 l~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~   85 (259)
                      ...+.+.|++++|++.|..+.+......                ...+..+...|...|++++|.+.+..+...- ..++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            4567889999999999999987522111                1246788999999999999999998876431 1112


Q ss_pred             h----hhHHHHHHHHHHcCCHHHHHHHHHHHHh----CCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-
Q 036731           86 V----VTFNVIMDELCKNRKMDEATRLLDLMIQ----GGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA-  156 (259)
Q Consensus        86 ~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  156 (259)
                      .    .+.+.+...+...|+++.|..++.....    .+..+.     -..++..+...|...|++++|..++++.... 
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-----~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~  165 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFL-----KHSLSIKLATLHYQKKQYKDSLALINDLLREF  165 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSS-----HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHH-----HHHHHHHHHHHHHHccChHHHHHHHHHHHHHH
Confidence            2    2233344445567889999999887653    222221     3578889999999999999999999987643 


Q ss_pred             -CC--CC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhc----CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 036731          157 -GL--MP-NVVTYNITIHALCNDEQMDKAHDLFLDMEVK----GVAPN--CVIFTTLMPSFIRKNETSKVIELLRSMD  224 (259)
Q Consensus       157 -~~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (259)
                       +.  .+ ...++..++..|...|++++|..++++....    +.++.  ...+..+...+...+++++|...+.+..
T Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          166 KKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             TTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence             11  11 2447888899999999999999999887643    11111  2456667777888999999998887765

>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=98.82  E-value=5.3e-07  Score=58.13  Aligned_cols=99  Identities=11%  Similarity=-0.012  Sum_probs=87.3

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      +...+..+...+.+.|++++|...|++..+... .+...|..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            457888899999999999999999999988743 367889999999999999999999999998873 345778899999


Q ss_pred             HHHhcCCHHHHHHHHHHHhhC
Q 036731          206 SFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      ++...|++++|...+++..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHh
Confidence            999999999999999998865

>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=98.82  E-value=2.4e-07  Score=59.83  Aligned_cols=119  Identities=8%  Similarity=0.024  Sum_probs=96.0

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCC--CCc----HHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGV--APN----CVI  199 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~p~----~~~  199 (259)
                      ....+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++......  .++    ..+
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   81 (131)
T 1elr_A            3 QALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHH
Confidence            35778889999999999999999999998874 33677888899999999999999999999887521  122    677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcc
Q 036731          200 FTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEI  247 (259)
Q Consensus       200 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  247 (259)
                      +..+...+...|++++|.+.+++..+..  |+......+..+....++
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~  127 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKCQQAEKILKE  127 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHHHH
Confidence            8888999999999999999999998763  466666666665555443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.81  E-value=1.3e-07  Score=69.40  Aligned_cols=190  Identities=8%  Similarity=-0.080  Sum_probs=135.8

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCchhhHHHH-------HHHHHHcCCHHHHHHHHHHHHhCCCCCCCc-------------
Q 036731           63 YANDGNEAEYLFIEMMDRGLQSDVVTFNVI-------MDELCKNRKMDEATRLLDLMIQGGVRPDAF-------------  122 (259)
Q Consensus        63 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------------  122 (259)
                      ..++...|.+.|.++.+.... ....|..+       ...+.+.++..+++..+.+-..  +.|...             
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            579999999999999987433 45667666       4555555555555554444333  222211             


Q ss_pred             ---cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc--H
Q 036731          123 ---CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPN--C  197 (259)
Q Consensus       123 ---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~--~  197 (259)
                         ...-......+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
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               00113455667888999999999999999887654  443355556668889999999999998554431 121  2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCcc--chHHHHHHHHHHHHhcccCCcchhhhcc
Q 036731          198 VIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP--YASILSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       198 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      ..+..+..++.+.|++++|...|++.......|  ..........++.+.|+.++|...|+++
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a  234 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWL  234 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            467788899999999999999999998543324  3456677888999999999999999864

>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=98.81  E-value=5.9e-07  Score=56.75  Aligned_cols=100  Identities=13%  Similarity=0.018  Sum_probs=87.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      ++..+..+...+...|++++|...|+...... +.+...+..+...+...|++++|...+++..+... .+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc-ccHHHHHHHHH
Confidence            45678889999999999999999999998763 44678888899999999999999999999988743 36778889999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCC
Q 036731           95 ELCKNRKMDEATRLLDLMIQGG  116 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~  116 (259)
                      ++...|++++|...+++..+..
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhHHHHHHHHHHHHHcC
Confidence            9999999999999999988753

>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=98.80  E-value=8.1e-07  Score=56.10  Aligned_cols=111  Identities=9%  Similarity=-0.054  Sum_probs=91.4

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      ....+..+...+...|++++|...+++...... .+...+..+...+...|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            457888899999999999999999999988642 367788889999999999999999999998773 346788889999


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHH
Q 036731          206 SFIRKNETSKVIELLRSMDKRNVMPYASILSIIV  239 (259)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  239 (259)
                      ++...|++++|.+.+++..+.+. .+...+..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~  113 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHEA-NNPQLKEGLQ  113 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHcCC-CCHHHHHHHH
Confidence            99999999999999999987642 2344444433

>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=98.79  E-value=4.5e-07  Score=58.47  Aligned_cols=95  Identities=17%  Similarity=0.106  Sum_probs=44.8

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHH
Q 036731           53 TYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC  132 (259)
Q Consensus        53 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  132 (259)
                      .+..+...+.+.|++++|+..|++..+.. +.+...|..+..++...|++++|+..+++..+..  |+     +...|..
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~-----~~~~~~~   77 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PN-----FVRAYIR   77 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CC-----cHHHHHH
Confidence            34444444555555555555555554442 1134444445555555555555555555444432  21     2344444


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHH
Q 036731          133 LIDGLCKIGKLKNARELSQSLTR  155 (259)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~~~~  155 (259)
                      +..++...|++++|...|++..+
T Consensus        78 lg~~~~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           78 KATAQIAVKEYASALETLDAART  100 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCHHHHHHHHHHHHH
Confidence            55555555555555555554443

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.79  E-value=2.4e-07  Score=60.07  Aligned_cols=110  Identities=10%  Similarity=0.105  Sum_probs=88.4

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC--CCCc----HHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG--VAPN----CVI  199 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~p~----~~~  199 (259)
                      ....+..+...+.+.|++++|+..|++..+... -+...|..+..+|...|++++|+..+++..+..  ..++    ..+
T Consensus         7 ~A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p-~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~   85 (127)
T 4gcn_A            7 AAIAEKDLGNAAYKQKDFEKAHVHYDKAIELDP-SNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKA   85 (127)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHH
Confidence            346788899999999999999999999988753 367789999999999999999999999987641  1111    246


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHH
Q 036731          200 FTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSII  238 (259)
Q Consensus       200 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  238 (259)
                      |..+..++...|++++|.+.|++.++.  .|+..+...+
T Consensus        86 ~~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~l  122 (127)
T 4gcn_A           86 MSRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKKV  122 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHHH
Confidence            777888899999999999999998865  4565555443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.76  E-value=3.4e-07  Score=60.54  Aligned_cols=99  Identities=8%  Similarity=-0.158  Sum_probs=85.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +...+..+...+.+.|++++|...|+...... +.+...|..+..++...|++++|...|+....... .+...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI-NEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHH
Confidence            44566677788999999999999999998763 44778889999999999999999999999998753 36778888999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhC
Q 036731           95 ELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~  115 (259)
                      ++...|++++|...|++..+.
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999998764

>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=98.75  E-value=6.8e-07  Score=58.42  Aligned_cols=101  Identities=12%  Similarity=-0.028  Sum_probs=89.0

Q ss_pred             cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHH
Q 036731           13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVI   92 (259)
Q Consensus        13 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   92 (259)
                      ..++..|..+...+.+.|++++|...|+...... +.+...|..+..++...|++++|...++...+... .+...+..+
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l   83 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFL   83 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-hhHHHHHHH
Confidence            3578889999999999999999999999998764 44678899999999999999999999999998753 367889999


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhC
Q 036731           93 MDELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~  115 (259)
                      ..++...|++++|...|++..+.
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH
Confidence            99999999999999999988754

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.74  E-value=2e-07  Score=62.54  Aligned_cols=139  Identities=8%  Similarity=-0.025  Sum_probs=93.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCC-Cc----hHhHHHHHHHHhhcCChhHHHHHHHHHHHcC----CCC-c
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENIN-PN----VVTYNSLIHGFCYANDGNEAEYLFIEMMDRG----LQS-D   85 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~~-~   85 (259)
                      ..++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..+..    ..+ .
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   88 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHH
Confidence            456778888888899999999998887653100 11    1467777888888899999988888776431    111 1


Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 036731           86 VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTR  155 (259)
Q Consensus        86 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  155 (259)
                      ...+..+..++...|++++|...+++..+....... ......++..+...+...|++++|...+++..+
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKD-RIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccc-hHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            345667777888888888888888776543111100 011345677777777888888888887777654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.74  E-value=8.4e-07  Score=60.11  Aligned_cols=101  Identities=10%  Similarity=-0.078  Sum_probs=88.9

Q ss_pred             hhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHH
Q 036731          125 INIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLM  204 (259)
Q Consensus       125 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  204 (259)
                      .+...+..+...+...|++++|...|++..+... -+...|..+..++...|++++|...+++..+.. +-+...|..+.
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIAP-ANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            3678899999999999999999999999988743 267789999999999999999999999998874 34578899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCC
Q 036731          205 PSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       205 ~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      .++...|++++|...|++..+..
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC
Confidence            99999999999999999988653

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.74  E-value=3.7e-07  Score=60.33  Aligned_cols=99  Identities=8%  Similarity=-0.097  Sum_probs=86.2

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      +...+..+...+.+.|++++|...|++...... .+...|..+..++...|++++|...|++..... +.+...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            567778888999999999999999999988753 367788889999999999999999999998874 345677888999


Q ss_pred             HHHhcCCHHHHHHHHHHHhhC
Q 036731          206 SFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      ++...|++++|.+.+++..+.
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999998765

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.74  E-value=4.7e-07  Score=61.38  Aligned_cols=101  Identities=9%  Similarity=-0.039  Sum_probs=89.1

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      .+...|..+...+.+.|++++|+..|++..+.. +-+...|..+..++...|++++|+..+++..+... .+...|..+.
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg   86 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP-KYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHH
Confidence            356788899999999999999999999998863 34778899999999999999999999999998753 3678899999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCC
Q 036731           94 DELCKNRKMDEATRLLDLMIQGG  116 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~  116 (259)
                      .+|...|++++|...|++..+..
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC
Confidence            99999999999999999988753

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.73  E-value=2.9e-07  Score=57.65  Aligned_cols=101  Identities=11%  Similarity=-0.048  Sum_probs=86.5

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC--cHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAP--NCVIFTTL  203 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l  203 (259)
                      +...+..+...+...|++++|...+++..+... .+...+..+..++...|++++|...+++..+.. +.  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            446788889999999999999999999988643 366788889999999999999999999998773 33  57888899


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHhhCCC
Q 036731          204 MPSFIRK-NETSKVIELLRSMDKRNV  228 (259)
Q Consensus       204 ~~~~~~~-~~~~~a~~~~~~~~~~~~  228 (259)
                      ...+... |++++|.+.+++..+...
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhccc
Confidence            9999999 999999999999987643

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.73  E-value=1.3e-06  Score=57.75  Aligned_cols=100  Identities=16%  Similarity=0.042  Sum_probs=87.4

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc----hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN----VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTF   89 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   89 (259)
                      .+...+..+...+.+.|++++|.+.|++..+.  .|+    ...+..+..++...|++++|...+++..+.. +.+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            46788999999999999999999999999876  455    6788888999999999999999999998874 3367788


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 036731           90 NVIMDELCKNRKMDEATRLLDLMIQGG  116 (259)
Q Consensus        90 ~~l~~~~~~~~~~~~a~~~~~~~~~~~  116 (259)
                      ..+..++...|++++|...|++..+..
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            889999999999999999999998753

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.72  E-value=5.2e-07  Score=58.97  Aligned_cols=118  Identities=11%  Similarity=-0.122  Sum_probs=95.7

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      +...+..+...+...|++++|...|+....... .+...|..+..++...|++++|...+++..... +.+...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc-CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            568899999999999999999999999988753 367789999999999999999999999998874 346788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCC----CccchHHHHHHHHHHHHh
Q 036731          206 SFIRKNETSKVIELLRSMDKRN----VMPYASILSIIVDLLVKN  245 (259)
Q Consensus       206 ~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~  245 (259)
                      ++...|++++|...+++..+..    ...+......+..+..+.
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~~~  129 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKR  129 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999987542    122455555555544443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.72  E-value=4e-07  Score=56.99  Aligned_cols=96  Identities=17%  Similarity=0.032  Sum_probs=40.5

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHH
Q 036731           54 YNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCL  133 (259)
Q Consensus        54 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l  133 (259)
                      +..+...+...|++++|...+++..+... .+...+..+..++...|++++|...+++..+.....     .+...+..+
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~-----~~~~~~~~l   82 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDE-----YNKDVWAAK   82 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCT-----TCHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCccc-----chHHHHHHH
Confidence            33344444444444444444444443321 133344444444444444444444444444332110     012344444


Q ss_pred             HHHHHhc-CChHHHHHHHHHHHH
Q 036731          134 IDGLCKI-GKLKNARELSQSLTR  155 (259)
Q Consensus       134 ~~~~~~~-~~~~~a~~~~~~~~~  155 (259)
                      ..++... |++++|.+.++....
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhh
Confidence            4444444 444444444444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.71  E-value=4.9e-07  Score=71.21  Aligned_cols=198  Identities=9%  Similarity=-0.038  Sum_probs=137.0

Q ss_pred             HHHHhhcCChhHHHHHHHHHHHcCCCCc----------------hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCC
Q 036731           58 IHGFCYANDGNEAEYLFIEMMDRGLQSD----------------VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDA  121 (259)
Q Consensus        58 i~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  121 (259)
                      ...+.+.|++++|++.|..+.+......                ...+..+...|...|++++|.+.+.++...-.....
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            3556788999999999999987532211                123677899999999999999999887642111110


Q ss_pred             ccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHhc--CC-
Q 036731          122 FCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA----GLMPN-VVTYNITIHALCNDEQMDKAHDLFLDMEVK--GV-  193 (259)
Q Consensus       122 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~-  193 (259)
                       ......+.+.+...+...|++++|..+++.....    +..+. ..++..+...+...|++++|..+++++...  +. 
T Consensus        91 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~  169 (434)
T 4b4t_Q           91 -SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLD  169 (434)
T ss_dssp             -HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSS
T ss_pred             -hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcc
Confidence             0001123444445555678999999999887542    22222 456788899999999999999999987643  11 


Q ss_pred             -CC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCcc--chHHHHHHHHHHHHhcccCCcchhhh
Q 036731          194 -AP-NCVIFTTLMPSFIRKNETSKVIELLRSMDKR----NVMP--YASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       194 -~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                       .+ ...++..++..|...|++++|..++++....    +.++  ....+..+...+...|++++|...|.
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~  240 (434)
T 4b4t_Q          170 DKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFF  240 (434)
T ss_dssp             CSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence             12 2457888899999999999999999887642    2121  13455666667777788888776654

>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=98.70  E-value=3.3e-07  Score=59.13  Aligned_cols=97  Identities=14%  Similarity=0.171  Sum_probs=47.7

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CCC----
Q 036731           88 TFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGL--MPN----  161 (259)
Q Consensus        88 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----  161 (259)
                      .+..+...+...|++++|...+++..+..  |+     +...+..+..++...|++++|...+++......  .++    
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~-----~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~   78 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD--PT-----NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQI   78 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC--Cc-----cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHH
Confidence            34444455555555555555555554432  11     234455555555555555555555555444321  011    


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          162 VVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      ..++..+..++...|++++|...|+...+.
T Consensus        79 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           79 AKAYARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            334555555555556666666665555544

>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=98.69  E-value=2.2e-05  Score=59.55  Aligned_cols=213  Identities=11%  Similarity=-0.004  Sum_probs=153.2

Q ss_pred             CHHHHHHHHHHHHhcC-ChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhc-C-ChhHHHHHHHHHHHcCCCCchhhHHH
Q 036731           15 NTVTYNTIIDGLCKEG-FVDKAKELFLQMKDENINPNVVTYNSLIHGFCYA-N-DGNEAEYLFIEMMDRGLQSDVVTFNV   91 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~   91 (259)
                      +..+|+.--..+...| .+++++++++.+.... +-+..+|+.-...+... + ++++++++++.+.+...+ |...|+.
T Consensus        87 ~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpk-Ny~AW~~  164 (349)
T 3q7a_A           87 HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPK-NYHTWAY  164 (349)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTT-CHHHHHH
T ss_pred             hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCC-CHHHHHH
Confidence            5566787777777788 5999999999999874 44777888777777666 6 899999999999987543 7778877


Q ss_pred             HHHHHHHcCCHH--------HHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC-------hHHHHHHHHHHHHc
Q 036731           92 IMDELCKNRKMD--------EATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK-------LKNARELSQSLTRA  156 (259)
Q Consensus        92 l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~a~~~~~~~~~~  156 (259)
                      -..++.+.|.++        ++++.++++.+....       |..+|+.....+.+.++       ++++++.+++....
T Consensus       165 R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-------N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~  237 (349)
T 3q7a_A          165 LHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-------NNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHL  237 (349)
T ss_dssp             HHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-------CHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-------CHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHh
Confidence            666666666555        899999999886543       55889888888888776       68899999888877


Q ss_pred             CCCCChhhHHHHHHHHHhcCCh--------------------hHHHHHHHHHHhcC-----CCCcHHHHHHHHHHHHhcC
Q 036731          157 GLMPNVVTYNITIHALCNDEQM--------------------DKAHDLFLDMEVKG-----VAPNCVIFTTLMPSFIRKN  211 (259)
Q Consensus       157 ~~~~~~~~~~~li~~~~~~~~~--------------------~~a~~~~~~~~~~~-----~~p~~~~~~~l~~~~~~~~  211 (259)
                      ... |...|+.+-..+.+.|+.                    ........++...+     -.++......++..|...|
T Consensus       238 ~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~  316 (349)
T 3q7a_A          238 IPH-NVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQN  316 (349)
T ss_dssp             CTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTT
T ss_pred             CCC-CHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcC
Confidence            543 777887776666666654                    22333333333221     1367788899999999999


Q ss_pred             CHHHHHHHHHHHhhCCCccchHHHHH
Q 036731          212 ETSKVIELLRSMDKRNVMPYASILSI  237 (259)
Q Consensus       212 ~~~~a~~~~~~~~~~~~~~~~~~~~~  237 (259)
                      +.++|.++++.+.+.--+....-|..
T Consensus       317 ~~~~a~~~~~~l~~~~dpir~~yw~~  342 (349)
T 3q7a_A          317 RVDDAAKVFEKLSSEYDQMRAGYWEF  342 (349)
T ss_dssp             CHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             CHHHHHHHHHHHHhhhChHHHHHHHH
Confidence            99999999999875422334444443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.68  E-value=2e-06  Score=56.75  Aligned_cols=98  Identities=15%  Similarity=0.025  Sum_probs=64.7

Q ss_pred             chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc----hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccch
Q 036731           50 NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD----VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEI  125 (259)
Q Consensus        50 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  125 (259)
                      +...+..+...+...|++++|...|++..+.  .|+    ...+..+..+|...|++++|...+++..+..  |+     
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~-----   97 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD--GG-----   97 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--SC-----
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC--cc-----
Confidence            4556666667777777777777777777665  233    4566666667777777777777777666542  22     


Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      +...+..+..++...|++++|...|++..+.
T Consensus        98 ~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A           98 DVKALYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            3456666677777777777777777776654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.66  E-value=3.9e-07  Score=61.10  Aligned_cols=138  Identities=7%  Similarity=-0.076  Sum_probs=79.8

Q ss_pred             hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCC-Cc----hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccch
Q 036731           51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ-SD----VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEI  125 (259)
Q Consensus        51 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  125 (259)
                      ..++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++.......... ...
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~-~~~   87 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKD-RAV   87 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-HHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCC-cHH
Confidence            345667777888888888888888877653111 11    136667777888888888888888776542111100 011


Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRA----GLM-PNVVTYNITIHALCNDEQMDKAHDLFLDME  189 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  189 (259)
                      ....+..+...+...|++++|...+++..+.    +.. .....+..+...+...|++++|...+++..
T Consensus        88 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A           88 EAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            2356666777777777777777777665432    100 012233444444445555555555554433

>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=98.63  E-value=8.9e-08  Score=76.61  Aligned_cols=126  Identities=10%  Similarity=-0.062  Sum_probs=98.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      ..+..+...+.+.|++++|...+++..+... .+...|..+..++.+.|++++|...+++..+.. +-+...+..+..+|
T Consensus         7 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~   84 (477)
T 1wao_1            7 EELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   84 (477)
T ss_dssp             TTSSSSSSSTTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3444555667789999999999999988742 257889999999999999999999999999873 34678899999999


Q ss_pred             HhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHH--HHHhcccCCcchhhh
Q 036731          208 IRKNETSKVIELLRSMDKRNVMPYASILSIIVDL--LVKNEISLNSIPQFN  256 (259)
Q Consensus       208 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~  256 (259)
                      ...|++++|.+.+++..+... .+...+..+..+  +.+.|++++|++.++
T Consensus        85 ~~~g~~~eA~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           85 MALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHTCHHHHHHHHHHHHHHST-TCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999999887642 233455555555  888999999999887

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.60  E-value=1.1e-06  Score=56.42  Aligned_cols=98  Identities=9%  Similarity=-0.064  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ...+..+...+.+.|++++|...|++..+.. +.+...|..+..++...|++++|+..|++..+.... +...+..+..+
T Consensus        17 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~   94 (121)
T 1hxi_A           17 HENPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVS   94 (121)
T ss_dssp             CSCHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            3456667788999999999999999998863 447888899999999999999999999999987433 67788899999


Q ss_pred             HHHcCCHHHHHHHHHHHHhC
Q 036731           96 LCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~  115 (259)
                      +...|++++|...+++..+.
T Consensus        95 ~~~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           95 HTNEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999998764

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.60  E-value=1.1e-06  Score=69.97  Aligned_cols=143  Identities=8%  Similarity=-0.039  Sum_probs=109.4

Q ss_pred             CCccccccccc--C-CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc---------------hHhHHHHHHHHhhc
Q 036731            3 NGNREFGVVCK--P-NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN---------------VVTYNSLIHGFCYA   64 (259)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~li~~~~~~   64 (259)
                      .|...++..+.  | ....|..+...+.+.|++++|...|++..+.. +.+               ...|..+..++.+.
T Consensus       252 ~A~~~~~~~~~~~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~  330 (457)
T 1kt0_A          252 KAKESWEMDTKEKLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLAMCYLKL  330 (457)
T ss_dssp             CCCCGGGSCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cCcchhhcCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34444544432  2 35578888899999999999999999998752 112               47888899999999


Q ss_pred             CChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChH
Q 036731           65 NDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLK  144 (259)
Q Consensus        65 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  144 (259)
                      |++++|+..+++..+... .+...|..+..+|...|++++|...|++..+.  .|+     +..++..+..++.+.++.+
T Consensus       331 g~~~~A~~~~~~al~~~p-~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~-----~~~a~~~l~~~~~~~~~~~  402 (457)
T 1kt0_A          331 REYTKAVECCDKALGLDS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQ-----NKAARLQISMCQKKAKEHN  402 (457)
T ss_dssp             TCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C---------CHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCC-----CHHHHHHHHHHHHHHHHHH
Confidence            999999999999998743 36788889999999999999999999999875  343     4578888888898888888


Q ss_pred             HHHH-HHHHHH
Q 036731          145 NARE-LSQSLT  154 (259)
Q Consensus       145 ~a~~-~~~~~~  154 (259)
                      ++.. .++.|.
T Consensus       403 ~a~~~~~~~~f  413 (457)
T 1kt0_A          403 ERDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHHHHHH
Confidence            7664 444443

>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=98.59  E-value=2.9e-05  Score=58.59  Aligned_cols=200  Identities=10%  Similarity=-0.000  Sum_probs=134.9

Q ss_pred             HHHHHHHHHHH---HhcCChH-HHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCC----------hhHHHHHHHHHHHcC
Q 036731           16 TVTYNTIIDGL---CKEGFVD-KAKELFLQMKDENINPNVVTYNSLIHGFCYAND----------GNEAEYLFIEMMDRG   81 (259)
Q Consensus        16 ~~~~~~ll~~~---~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~----------~~~a~~~~~~~~~~~   81 (259)
                      +..|..+....   .+.|.+. +|+++++.+...+ +-+..+|+.--......+.          +++++.+++.+....
T Consensus        26 i~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~  104 (331)
T 3dss_A           26 LKLYQSATQAVFQKRQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN  104 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC
Confidence            34455554433   4566664 7899999888763 2244455544333333332          577888888888764


Q ss_pred             CCCchhhHHHHHHHHHHcC--CHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCC-hHHHHHHHHHHHHcCC
Q 036731           82 LQSDVVTFNVIMDELCKNR--KMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGK-LKNARELSQSLTRAGL  158 (259)
Q Consensus        82 ~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~  158 (259)
                      .+ +..+|+.-..++...+  .+++++.+++++.+....       +-.+|+.-.-+....|. +++++..++.+.+..+
T Consensus       105 PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dpr-------Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p  176 (331)
T 3dss_A          105 PK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-------NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF  176 (331)
T ss_dssp             TT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTT-------CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS
T ss_pred             CC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCC-------CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC
Confidence            43 7778888777777777  478999999998875433       45788877777778887 5889999998888765


Q ss_pred             CCChhhHHHHHHHHHhc--------------CChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc-----------CCH
Q 036731          159 MPNVVTYNITIHALCND--------------EQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRK-----------NET  213 (259)
Q Consensus       159 ~~~~~~~~~li~~~~~~--------------~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-----------~~~  213 (259)
                      . |...|+.....+...              +.++++++.+.+..... +-|...|+.+-..+.+.           +.+
T Consensus       177 ~-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l  254 (331)
T 3dss_A          177 S-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVL  254 (331)
T ss_dssp             C-CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHH
T ss_pred             C-CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHH
Confidence            4 677777666555544              45678888888887763 34566666554444444           356


Q ss_pred             HHHHHHHHHHhhC
Q 036731          214 SKVIELLRSMDKR  226 (259)
Q Consensus       214 ~~a~~~~~~~~~~  226 (259)
                      +++.+.++++.+.
T Consensus       255 ~~el~~~~elle~  267 (331)
T 3dss_A          255 QSELESCKELQEL  267 (331)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            7888888888865

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.58  E-value=1.1e-06  Score=56.42  Aligned_cols=94  Identities=12%  Similarity=-0.066  Sum_probs=50.5

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 036731           89 FNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNIT  168 (259)
Q Consensus        89 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  168 (259)
                      +..+...+.+.|++++|...|++..+.  .|+     +...|..+..++...|++++|+..|++..+.... +...+..+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~-----~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~l   91 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK--EPE-----REEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAAL   91 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STT-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CCC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            334445555566666666666555543  222     3355555555566666666666666555554321 34455555


Q ss_pred             HHHHHhcCChhHHHHHHHHHHh
Q 036731          169 IHALCNDEQMDKAHDLFLDMEV  190 (259)
Q Consensus       169 i~~~~~~~~~~~a~~~~~~~~~  190 (259)
                      ..++...|++++|...+++..+
T Consensus        92 a~~~~~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           92 AVSHTNEHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555556666555555554

>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=98.58  E-value=1.3e-07  Score=75.57  Aligned_cols=87  Identities=11%  Similarity=0.012  Sum_probs=38.8

Q ss_pred             HHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHH
Q 036731           26 LCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEA  105 (259)
Q Consensus        26 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  105 (259)
                      +.+.|++++|.+.|++..+.. +.+..+|..+..++.+.|++++|+..+++..+... .+...+..+..+|...|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHH
Confidence            334444555555554444431 22344444444444444444444444444444321 1334444444444444444444


Q ss_pred             HHHHHHHHh
Q 036731          106 TRLLDLMIQ  114 (259)
Q Consensus       106 ~~~~~~~~~  114 (259)
                      .+.|++..+
T Consensus        94 ~~~~~~al~  102 (477)
T 1wao_1           94 LRDYETVVK  102 (477)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.57  E-value=4.1e-06  Score=53.98  Aligned_cols=97  Identities=13%  Similarity=0.016  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh---hhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc---HHHHHH
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNV---VTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPN---CVIFTT  202 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~  202 (259)
                      .+..+...+...|++++|...|+...+.... +.   ..+..+..++...|++++|...+++..... +.+   ...+..
T Consensus         4 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~   81 (129)
T 2xev_A            4 TAYNVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLK   81 (129)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHH
Confidence            3456678889999999999999999886422 23   477788889999999999999999998763 222   567888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          203 LMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       203 l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      +..++...|++++|...++++.+..
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            8899999999999999999998763

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.55  E-value=7.1e-06  Score=52.80  Aligned_cols=95  Identities=13%  Similarity=0.036  Sum_probs=41.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC---hhhHHHH
Q 036731           92 IMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN---VVTYNIT  168 (259)
Q Consensus        92 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l  168 (259)
                      +...+...|++++|...|+++.+..  |+.  ......+..+..++...|++++|...+++..+.... +   ...+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~--p~~--~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~l   82 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY--PNG--VYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--SSS--TTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC--CCC--cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHH
Confidence            3344444555555555555444321  110  001134444444555555555555555554443211 1   2334444


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhc
Q 036731          169 IHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       169 i~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      ..++...|++++|...|+++...
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            44555555555555555555443

>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=98.55  E-value=2.6e-06  Score=67.83  Aligned_cols=124  Identities=7%  Similarity=-0.075  Sum_probs=72.2

Q ss_pred             hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc--------------hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 036731           51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD--------------VVTFNVIMDELCKNRKMDEATRLLDLMIQGG  116 (259)
Q Consensus        51 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  116 (259)
                      ...+..+...+.+.|++++|...|++..+......              ...|..+..+|.+.|++++|+..+++..+..
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            44566677777778888888888877776422211              3555566666666666666666666665532


Q ss_pred             CCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHH
Q 036731          117 VRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAH  182 (259)
Q Consensus       117 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  182 (259)
                        |+     +...|..+..+|...|++++|...|++..+... -+...+..+..++...++.+++.
T Consensus       348 --p~-----~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          348 --SA-----NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             --TT-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             --Cc-----cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHH
Confidence              22     345666666666666666666666666655432 13445555555555555555444

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.54  E-value=3e-06  Score=57.20  Aligned_cols=120  Identities=12%  Similarity=0.013  Sum_probs=92.7

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHc--------C---------CCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRA--------G---------LMPNVVTYNITIHALCNDEQMDKAHDLFLDM  188 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  188 (259)
                      ....+......+.+.|++++|...|++....        .         -+.+...|..+..++.+.|++++|...++..
T Consensus        10 ~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           10 SVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3467888889999999999999999998764        1         0113457888899999999999999999999


Q ss_pred             HhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchH-H-HHHHHHHHHHhccc
Q 036731          189 EVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYAS-I-LSIIVDLLVKNEIS  248 (259)
Q Consensus       189 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~-~~~l~~~~~~~g~~  248 (259)
                      .... +.+...|..+..++...|++++|...+++..+..  |+.. . ...+..+..+.+..
T Consensus        90 l~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~l~~~~~~~~~~  148 (162)
T 3rkv_A           90 LKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH--PAAASVVAREMKIVTERRAEK  148 (162)
T ss_dssp             HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHH
T ss_pred             HhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHHHH
Confidence            8873 4467889999999999999999999999998764  4433 3 44444444444333

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.53  E-value=2.2e-06  Score=53.63  Aligned_cols=96  Identities=7%  Similarity=-0.023  Sum_probs=72.8

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccc------hHH
Q 036731          161 NVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPY------ASI  234 (259)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~  234 (259)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|.+.+++..+.... +      ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTST-AEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSS-TTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ccHHHHHHHH
Confidence            34566667777778888888888888877663 335677888888888888999998888888865322 2      566


Q ss_pred             HHHHHHHHHHhcccCCcchhhhcc
Q 036731          235 LSIIVDLLVKNEISLNSIPQFNRQ  258 (259)
Q Consensus       235 ~~~l~~~~~~~g~~~~a~~~~~~~  258 (259)
                      +..+..++...|+.++|++.|+++
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHHhHhhhHhHHHHh
Confidence            777888888999999998888764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.50  E-value=4.5e-07  Score=57.76  Aligned_cols=87  Identities=13%  Similarity=0.016  Sum_probs=70.4

Q ss_pred             hcCChHHHHHHHHHHhhCC--CCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHH
Q 036731           28 KEGFVDKAKELFLQMKDEN--INPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEA  105 (259)
Q Consensus        28 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  105 (259)
                      ..|++++|+..|++..+.+  -+.+...+..+..++...|++++|+..|++..+.... +...+..+..++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHH
Confidence            4688999999999998764  2335677888999999999999999999999987533 577888899999999999999


Q ss_pred             HHHHHHHHhC
Q 036731          106 TRLLDLMIQG  115 (259)
Q Consensus       106 ~~~~~~~~~~  115 (259)
                      ...+++....
T Consensus        81 ~~~~~~al~~   90 (117)
T 3k9i_A           81 VELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998865

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.46  E-value=4.1e-06  Score=64.74  Aligned_cols=125  Identities=12%  Similarity=-0.015  Sum_probs=100.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhC---------------CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDE---------------NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      ...|..+...+.+.|++++|+..|++..+.               --+.+...|..+..++.+.|++++|+..+++..+.
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  302 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI  302 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            345778888999999999999999998761               11234677888899999999999999999999986


Q ss_pred             CCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHH
Q 036731           81 GLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARE  148 (259)
Q Consensus        81 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  148 (259)
                      .. .+...+..+..+|...|++++|+..|++..+..  |+     +...+..+..++...++.+++.+
T Consensus       303 ~p-~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~--P~-----~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          303 DP-SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA--PE-----DKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             CT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             Cc-hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHHHHHHHHHH
Confidence            43 367788899999999999999999999988753  43     45677777777777777766654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.46  E-value=9.8e-07  Score=56.15  Aligned_cols=86  Identities=10%  Similarity=0.036  Sum_probs=55.6

Q ss_pred             cCChhHHHHHHHHHHHcC--CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC
Q 036731           64 ANDGNEAEYLFIEMMDRG--LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG  141 (259)
Q Consensus        64 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  141 (259)
                      .|++++|+..|++..+.+  -+.+...+..+..+|...|++++|+..|++..+..  |+     +..++..+..++...|
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~-----~~~~~~~l~~~~~~~g   75 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF--PN-----HQALRVFYAMVLYNLG   75 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CC-----chHHHHHHHHHHHHcC
Confidence            467777777777777653  12245566677777777777777777777776642  33     3466777777777777


Q ss_pred             ChHHHHHHHHHHHHc
Q 036731          142 KLKNARELSQSLTRA  156 (259)
Q Consensus       142 ~~~~a~~~~~~~~~~  156 (259)
                      ++++|...+++....
T Consensus        76 ~~~~A~~~~~~al~~   90 (117)
T 3k9i_A           76 RYEQGVELLLKIIAE   90 (117)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            777777777776654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.46  E-value=8e-06  Score=55.07  Aligned_cols=107  Identities=18%  Similarity=0.126  Sum_probs=76.2

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCC------CCCCCc-----cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731           88 TFNVIMDELCKNRKMDEATRLLDLMIQGG------VRPDAF-----CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus        88 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      .+......+.+.|++++|+..|.+....-      ..|...     .+.+..+|..+..+|.+.|++++|...++...+.
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            34445555555666666655555554320      001000     0114578999999999999999999999999887


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcH
Q 036731          157 GLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNC  197 (259)
Q Consensus       157 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~  197 (259)
                      .. .+...|..+..++...|++++|...|++....  .|+.
T Consensus        93 ~p-~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~  130 (162)
T 3rkv_A           93 EE-TNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAA  130 (162)
T ss_dssp             ST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGG
T ss_pred             CC-cchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCC
Confidence            53 36778999999999999999999999999887  4543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.45  E-value=5.3e-06  Score=64.11  Aligned_cols=87  Identities=8%  Similarity=-0.055  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      .+|..+..+|.+.|++++|...+++..+... .+...|..+..++...|++++|...|++..+.. +-+...+..+...+
T Consensus       274 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~  351 (370)
T 1ihg_A          274 SCVLNIGACKLKMSDWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVK  351 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            4445555555555555555555555544321 133444444555555555555555555544431 11333444444444


Q ss_pred             HhcCCHHHH
Q 036731          208 IRKNETSKV  216 (259)
Q Consensus       208 ~~~~~~~~a  216 (259)
                      ...++.+++
T Consensus       352 ~~~~~~~~a  360 (370)
T 1ihg_A          352 QKIKAQKDK  360 (370)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.42  E-value=4.4e-05  Score=62.37  Aligned_cols=174  Identities=10%  Similarity=-0.036  Sum_probs=134.5

Q ss_pred             ChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCC----------HHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHH
Q 036731           66 DGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRK----------MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLID  135 (259)
Q Consensus        66 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  135 (259)
                      ..++|++.++.+...... +..+|+.--.++...|+          +++++..++.+.+...  .     +..+|+.-.-
T Consensus        44 ~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~p--K-----~y~aW~hR~w  115 (567)
T 1dce_A           44 LDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP--K-----SYGTWHHRCW  115 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT--T-----CHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCC--C-----CHHHHHHHHH
Confidence            345678888888877433 56667766666666666          8999999999987643  3     5588999888


Q ss_pred             HHHhcC--ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC-ChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc--
Q 036731          136 GLCKIG--KLKNARELSQSLTRAGLMPNVVTYNITIHALCNDE-QMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRK--  210 (259)
Q Consensus       136 ~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~--  210 (259)
                      ++.+.+  ++++++..++++.+...+ +...|+.-...+.+.| .++++++.++++.+.. +-|...|+.....+.+.  
T Consensus       116 ~l~~l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~  193 (567)
T 1dce_A          116 LLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHP  193 (567)
T ss_dssp             HHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSC
T ss_pred             HHHHcccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcc
Confidence            999999  779999999999998655 7788888877888888 8899999999998774 34677787776666553  


Q ss_pred             ------------CCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCC
Q 036731          211 ------------NETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLN  250 (259)
Q Consensus       211 ------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  250 (259)
                                  +.++++.+.+.+.+... +-+...|.-....+.+.++.++
T Consensus       194 ~~~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          194 QPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCCSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence                        55789999999988764 3367788877777877777655

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.41  E-value=6.4e-06  Score=65.83  Aligned_cols=143  Identities=9%  Similarity=-0.008  Sum_probs=103.1

Q ss_pred             cccCCHHHHHHHHH----------HHHhcCChHHHHHHHHHHhhC-----C--CCCchHhHHHHHHHHhhcCChhHHHHH
Q 036731           11 VCKPNTVTYNTIID----------GLCKEGFVDKAKELFLQMKDE-----N--INPNVVTYNSLIHGFCYANDGNEAEYL   73 (259)
Q Consensus        11 ~~~~~~~~~~~ll~----------~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~li~~~~~~~~~~~a~~~   73 (259)
                      +++|+..++..++.          .+...|++++|+.++++..+.     |  .+....+++.|...|...|++++|..+
T Consensus       294 ~~~~s~e~v~~~l~~a~~~le~a~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~  373 (490)
T 3n71_A          294 DPKPSQEVVKEMIQFSKDTLEKIDKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHY  373 (490)
T ss_dssp             SSCCCHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            34566665554432          355789999999999887643     1  111356789999999999999999999


Q ss_pred             HHHHHHc-----CC-CC-chhhHHHHHHHHHHcCCHHHHHHHHHHHHh---CCCCCCCccchhHHHHHHHHHHHHhcCCh
Q 036731           74 FIEMMDR-----GL-QS-DVVTFNVIMDELCKNRKMDEATRLLDLMIQ---GGVRPDAFCEINIVAYGCLIDGLCKIGKL  143 (259)
Q Consensus        74 ~~~~~~~-----~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  143 (259)
                      +++..+.     |. .| ...+++.|...|...|++++|+.++++...   .-..|+.  +....+.+.+-.++...+.+
T Consensus       374 ~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~H--p~~~~~~~~l~~~~~e~~~~  451 (490)
T 3n71_A          374 ARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSH--PITKDLEAMRMQTEMELRMF  451 (490)
T ss_dssp             HHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTS--HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC--hHHHHHHHHHHHHHHHHHHH
Confidence            9987642     21 12 356789999999999999999999987653   2223332  22345666777778888889


Q ss_pred             HHHHHHHHHHHH
Q 036731          144 KNARELSQSLTR  155 (259)
Q Consensus       144 ~~a~~~~~~~~~  155 (259)
                      ++|+.++..+.+
T Consensus       452 ~~ae~~~~~~~~  463 (490)
T 3n71_A          452 RQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988865

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.40  E-value=4.1e-06  Score=66.94  Aligned_cols=130  Identities=10%  Similarity=0.007  Sum_probs=94.5

Q ss_pred             HHhhcCChhHHHHHHHHHHHcC---CCC----chhhHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCCCCCccchhHHH
Q 036731           60 GFCYANDGNEAEYLFIEMMDRG---LQS----DVVTFNVIMDELCKNRKMDEATRLLDLMIQG---GVRPDAFCEINIVA  129 (259)
Q Consensus        60 ~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~~~  129 (259)
                      .+...|++++|+.++++..+..   +-|    ...+++.|..+|...|++++|..++++....   -..++.  +....+
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~H--p~~a~~  395 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNN--AQLGMA  395 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTC--HHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCC--HHHHHH
Confidence            3567899999999998887431   112    3567899999999999999999999887532   223331  235678


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHc-----CCC-C-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          130 YGCLIDGLCKIGKLKNARELSQSLTRA-----GLM-P-NVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      ++.|...|...|++++|+.++++..+.     |.. | ...+...+-.++...+.+++|+.+++.+++.
T Consensus       396 l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          396 VMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999887542     321 1 1234455666677778888888888887653

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.40  E-value=0.00016  Score=58.15  Aligned_cols=207  Identities=6%  Similarity=-0.057  Sum_probs=133.9

Q ss_pred             HHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 036731           33 DKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLM  112 (259)
Q Consensus        33 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  112 (259)
                      +.+..+|+++... .+.+...|...+..+.+.|+.+.|..++++....  +.+...|.    .|....+.++.   ++.+
T Consensus       196 ~Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~l  265 (493)
T 2uy1_A          196 SRMHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGDL  265 (493)
T ss_dssp             HHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHHH
T ss_pred             HHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHHH
Confidence            4567889988875 3556788888888889999999999999999987  33333332    23222222222   3333


Q ss_pred             HhCCCCCC------CccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh-cCChhHHHHHH
Q 036731          113 IQGGVRPD------AFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN-DEQMDKAHDLF  185 (259)
Q Consensus       113 ~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~~a~~~~  185 (259)
                      .+.-....      ........+|...+....+.++.+.|..+|+.. .. ...+...|......-.. .++.+.|..+|
T Consensus       266 ~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~if  343 (493)
T 2uy1_A          266 KRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIF  343 (493)
T ss_dssp             HHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHH
T ss_pred             HHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHH
Confidence            22110000      001113467888888888889999999999998 32 12233444433322222 33699999999


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          186 LDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       186 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      +...+.- +-++..+...++.....|+.+.|..+|+++.     .....|...++.=...|+.+.+.+++++
T Consensus       344 e~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~  409 (493)
T 2uy1_A          344 SSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQ  409 (493)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            9988762 2234556667887888999999999999873     2456777777766677777666665554

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.40  E-value=2.1e-06  Score=65.58  Aligned_cols=149  Identities=11%  Similarity=0.009  Sum_probs=73.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDE   95 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   95 (259)
                      ...+..+...+.+.|++++|...|++....  .|+...       +...++.+++...+          ....|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH----------HHHHHHHHHHH
Confidence            344666666677777777777777776654  233221       11222222222111          11367778888


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHH-HHh
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHA-LCN  174 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~  174 (259)
                      |.+.|++++|+..+++..+..  |+     +...|..+..+|...|++++|...|++..+.... +...+..+... ...
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~--p~-----~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~  311 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEE--EK-----NPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQE  311 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHH
Confidence            888888888888888877643  33     4578888888888888888888888887654321 33444444444 233


Q ss_pred             cCChhHHHHHHHHHHhc
Q 036731          175 DEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~  191 (259)
                      .+..+.+...|..+...
T Consensus       312 ~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          312 KALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             -----------------
T ss_pred             HHHHHHHHHHHHHhhCC
Confidence            45667777788777654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.39  E-value=2e-06  Score=65.70  Aligned_cols=147  Identities=16%  Similarity=-0.010  Sum_probs=82.5

Q ss_pred             HhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHH
Q 036731           52 VTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYG  131 (259)
Q Consensus        52 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (259)
                      ..+..+...+.+.|++++|...|++....  .|+...       +...++.+++...+   .             ...|.
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~-------------~~~~~  234 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K-------------NPCHL  234 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H-------------THHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H-------------HHHHH
Confidence            34556666777788888888888877665  233221       11223333332221   1             15889


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc-HHHHHHHHHH-HHh
Q 036731          132 CLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPN-CVIFTTLMPS-FIR  209 (259)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~-~~~  209 (259)
                      .+..+|.+.|++++|...+++..+... .+...|..+..++...|++++|...|++..+.  .|+ ...+..+... ...
T Consensus       235 nla~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~  311 (338)
T 2if4_A          235 NIAACLIKLKRYDEAIGHCNIVLTEEE-KNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQE  311 (338)
T ss_dssp             HHHHHHHTTTCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999988642 36778999999999999999999999998765  343 4445555544 234


Q ss_pred             cCCHHHHHHHHHHHhhC
Q 036731          210 KNETSKVIELLRSMDKR  226 (259)
Q Consensus       210 ~~~~~~a~~~~~~~~~~  226 (259)
                      .+..+.+...+..|...
T Consensus       312 ~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          312 KALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             -----------------
T ss_pred             HHHHHHHHHHHHHhhCC
Confidence            56778888899988765

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.31  E-value=3e-05  Score=51.69  Aligned_cols=97  Identities=16%  Similarity=0.042  Sum_probs=69.0

Q ss_pred             HHHHHHHhhcCChhHHHHHHHHHHHcCCCC-----------chhhHHHHHHHHHHcCCHHHHHHHHHHHHhC-----CCC
Q 036731           55 NSLIHGFCYANDGNEAEYLFIEMMDRGLQS-----------DVVTFNVIMDELCKNRKMDEATRLLDLMIQG-----GVR  118 (259)
Q Consensus        55 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~  118 (259)
                      ......+.+.|++++|+..|++..+.....           +...|..+..++.+.|++++|+..+++..+.     .+.
T Consensus        15 ~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~   94 (159)
T 2hr2_A           15 LSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN   94 (159)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCC
Confidence            334444555556666666665555432110           1237888888999999999999999888764     124


Q ss_pred             CCCccchhHHHH----HHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          119 PDAFCEINIVAY----GCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       119 ~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      |+     +...|    .....++...|++++|+..|++..+.
T Consensus        95 pd-----~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           95 QD-----EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             ST-----HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             Cc-----hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            54     66788    99999999999999999999998764

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.30  E-value=2.5e-05  Score=52.02  Aligned_cols=98  Identities=10%  Similarity=-0.093  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc--------h-----HhHHHHHHHHhhcCChhHHHHHHHHHHHc--
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPN--------V-----VTYNSLIHGFCYANDGNEAEYLFIEMMDR--   80 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--------~-----~~~~~li~~~~~~~~~~~a~~~~~~~~~~--   80 (259)
                      ...+......+.+.|++++|+..|++..+.  .|+        .     ..|..+..++.+.|++++|+..+++.++.  
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n   88 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   88 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhh
Confidence            345667778889999999999999999875  233        2     28899999999999999999999999875  


Q ss_pred             ---CCCC-chhhH----HHHHHHHHHcCCHHHHHHHHHHHHhC
Q 036731           81 ---GLQS-DVVTF----NVIMDELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        81 ---~~~~-~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~  115 (259)
                         .+.| +...|    .....++...|++++|+..|++..+.
T Consensus        89 ~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           89 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence               1234 46677    88999999999999999999998753

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.30  E-value=3.9e-05  Score=50.26  Aligned_cols=112  Identities=10%  Similarity=-0.083  Sum_probs=92.5

Q ss_pred             CChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH----cCCHHHH
Q 036731           30 GFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK----NRKMDEA  105 (259)
Q Consensus        30 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  105 (259)
                      +++++|.++|++..+.| .|+.  .  +...|...+.+++|.+.|++..+.|   +...+..|...|..    .+++++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a--~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFG--C--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTH--H--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhh--h--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            46889999999999887 2233  3  7777777788899999999998875   66778888888888    8899999


Q ss_pred             HHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCC
Q 036731          106 TRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK----IGKLKNARELSQSLTRAGL  158 (259)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~  158 (259)
                      .+.|++..+.|.         +..+..+...|..    .++.++|...|++..+.|.
T Consensus        81 ~~~~~~Aa~~g~---------~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           81 AQYYSKACGLND---------QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHTTC---------HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCC---------HHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999988753         3788888888888    8899999999999888763

>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=98.28  E-value=0.00057  Score=51.62  Aligned_cols=197  Identities=9%  Similarity=0.004  Sum_probs=141.4

Q ss_pred             hHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcC--ChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCC-HHHHHHH
Q 036731           32 VDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN--DGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRK-MDEATRL  108 (259)
Q Consensus        32 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~  108 (259)
                      +++++.+++.+.... +-+..+|+.-.-.+...+  ++++++.+++.+.+.... |...|+.-..++...|. ++++++.
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            678899999988764 447788887777777777  489999999999988544 78888888888888888 5899999


Q ss_pred             HHHHHhCCCCCCCccchhHHHHHHHHHHHHhc--------------CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731          109 LDLMIQGGVRPDAFCEINIVAYGCLIDGLCKI--------------GKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      ++++.+....       |..+|+.....+...              +.++++++.+.......+. |...|+-+-..+.+
T Consensus       168 ~~~~I~~~p~-------N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~  239 (331)
T 3dss_A          168 TDSLITRNFS-------NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGA  239 (331)
T ss_dssp             HHHHHHHCSC-------CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHS
T ss_pred             HHHHHHHCCC-------CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHh
Confidence            9999886543       557888777776665              4578899999988876533 67777655444444


Q ss_pred             c-----------CChhHHHHHHHHHHhcCCCCcHHHHHHHH-----HHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHH
Q 036731          175 D-----------EQMDKAHDLFLDMEVKGVAPNCVIFTTLM-----PSFIRKNETSKVIELLRSMDKRNVMPYASILSII  238 (259)
Q Consensus       175 ~-----------~~~~~a~~~~~~~~~~~~~p~~~~~~~l~-----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  238 (259)
                      .           +.++++++.++++.+.  .|+. .|..+.     ......+..+++...+.++++.+ +....-|..+
T Consensus       240 ~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~D-p~r~~~y~d~  315 (331)
T 3dss_A          240 GSGRCELSVEKSTVLQSELESCKELQEL--EPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD-PMRAAYLDDL  315 (331)
T ss_dssp             SSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHC-GGGHHHHHHH
T ss_pred             ccCccccchHHHHHHHHHHHHHHHHHhh--Cccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhC-cchhhHHHHH
Confidence            4           3577888999998876  5654 333221     12224677888999999998764 2344455555


Q ss_pred             HHHH
Q 036731          239 VDLL  242 (259)
Q Consensus       239 ~~~~  242 (259)
                      ...+
T Consensus       316 ~~~~  319 (331)
T 3dss_A          316 RSKF  319 (331)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.26  E-value=0.00021  Score=58.35  Aligned_cols=187  Identities=10%  Similarity=-0.010  Sum_probs=140.5

Q ss_pred             HHHHHHHHH---HHhcCC-hHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCC----------hhHHHHHHHHHHHcCC
Q 036731           17 VTYNTIIDG---LCKEGF-VDKAKELFLQMKDENINPNVVTYNSLIHGFCYAND----------GNEAEYLFIEMMDRGL   82 (259)
Q Consensus        17 ~~~~~ll~~---~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~----------~~~a~~~~~~~~~~~~   82 (259)
                      ..|..+...   ..+.|. .++|++.++.+...+ +-+..+|+.--.++...|+          ++++++.++.+.+...
T Consensus        26 ~~y~~~~~~~~~~~~~~~~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~p  104 (567)
T 1dce_A           26 KLYQSATQAVFQKRQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP  104 (567)
T ss_dssp             HHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCC
Confidence            445544333   334454 468899999998874 3356677776666666666          8999999999998754


Q ss_pred             CCchhhHHHHHHHHHHcC--CHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCC
Q 036731           83 QSDVVTFNVIMDELCKNR--KMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG-KLKNARELSQSLTRAGLM  159 (259)
Q Consensus        83 ~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~  159 (259)
                      + +..+|+.-..++.+.+  +++++++.++++.+.+..       +..+|+.-..+..+.| .++++++.++++.+..+.
T Consensus       105 K-~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~~-------N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~  176 (567)
T 1dce_A          105 K-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-------NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS  176 (567)
T ss_dssp             T-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-------CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC
T ss_pred             C-CHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhccc-------cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC
Confidence            4 7888998888888999  779999999999986543       5588988888888888 899999999999887654


Q ss_pred             CChhhHHHHHHHHHhc--------------CChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH
Q 036731          160 PNVVTYNITIHALCND--------------EQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETS  214 (259)
Q Consensus       160 ~~~~~~~~li~~~~~~--------------~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  214 (259)
                       +...|+.....+.+.              +.++++.+.+.+..... +-|...|..+-..+.+.++.+
T Consensus       177 -n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          177 -NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             -CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCS
T ss_pred             -CccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCcc
Confidence             777888777776653              45788999998888763 335667777777776666643

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.26  E-value=5.8e-05  Score=49.46  Aligned_cols=113  Identities=5%  Similarity=-0.128  Sum_probs=93.9

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----c
Q 036731          100 RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN----D  175 (259)
Q Consensus       100 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~  175 (259)
                      +++++|++.|++..+.|..         ...  +...|...+.+++|...|++..+.|   +...+..+...|..    .
T Consensus         9 ~d~~~A~~~~~~aa~~g~~---------~a~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~   74 (138)
T 1klx_A            9 KDLKKAIQYYVKACELNEM---------FGC--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVK   74 (138)
T ss_dssp             HHHHHHHHHHHHHHHTTCT---------THH--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSC
T ss_pred             cCHHHHHHHHHHHHcCCCH---------hhh--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCC
Confidence            4678999999999887732         233  7777778888999999999998875   66778888888887    8


Q ss_pred             CChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCc
Q 036731          176 EQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR----KNETSKVIELLRSMDKRNVM  229 (259)
Q Consensus       176 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~  229 (259)
                      +++++|..+|++..+.|   +...+..|...|..    .+++++|.+++++..+.|..
T Consensus        75 ~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~  129 (138)
T 1klx_A           75 KDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  129 (138)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             ccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCCH
Confidence            89999999999999876   56778888888888    89999999999999888743

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.17  E-value=0.0007  Score=54.40  Aligned_cols=188  Identities=10%  Similarity=-0.010  Sum_probs=127.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcC------------C
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG------------L   82 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~------------~   82 (259)
                      +...|-..+..+.+.|+++.|..++++....  +.+...|..    |+...+.++.   ++.+.+.-            .
T Consensus       212 ~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~  282 (493)
T 2uy1_A          212 AEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAV---YGDLKRKYSMGEAESAEKVFS  282 (493)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHH---HHHHHHHTC----------CH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHH---HHHHHHHHHhhccchhhhhcc
Confidence            5677888888889999999999999999987  444433332    2222222222   33332210            0


Q ss_pred             CCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh-cCChHHHHHHHHHHHHcCCCCC
Q 036731           83 QSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK-IGKLKNARELSQSLTRAGLMPN  161 (259)
Q Consensus        83 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~  161 (259)
                      ......|...+....+.++.+.|..+|++. +.   |..    +..+|......-.. .++.+.|..+|+...+.- +-+
T Consensus       283 ~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~---~~~----~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~  353 (493)
T 2uy1_A          283 KELDLLRINHLNYVLKKRGLELFRKLFIEL-GN---EGV----GPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDS  353 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT---SCC----CHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTC
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC---CCC----ChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCC
Confidence            112345777777777888899999999988 32   211    22444433332222 337999999999988753 223


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          162 VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       162 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      ...+...+......|+.+.|..+|+.+.     .....|...+..-...|+.+.+.+++++..+
T Consensus       354 ~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          354 TLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4456667777788999999999999973     2577888888888888999999998888763

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.10  E-value=6.7e-05  Score=44.72  Aligned_cols=83  Identities=13%  Similarity=0.157  Sum_probs=63.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +...|..+...+.+.|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+... .+...+..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            45678888888899999999999999888763 34667788888889999999999999998887642 24556666666


Q ss_pred             HHHHc
Q 036731           95 ELCKN   99 (259)
Q Consensus        95 ~~~~~   99 (259)
                      ++...
T Consensus        86 ~~~~~   90 (91)
T 1na3_A           86 AKQKQ   90 (91)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            55543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.09  E-value=4.3e-05  Score=47.52  Aligned_cols=65  Identities=9%  Similarity=-0.004  Sum_probs=38.5

Q ss_pred             chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 036731           50 NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        50 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  115 (259)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|+..+++..+.
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            34455555566666666666666666665542 224555666666666666666666666666553

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.07  E-value=3.4e-05  Score=48.61  Aligned_cols=80  Identities=11%  Similarity=0.020  Sum_probs=59.9

Q ss_pred             HHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHH
Q 036731           34 KAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMI  113 (259)
Q Consensus        34 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  113 (259)
                      .|...|++..+.. +.+...+..+...+...|++++|...+++..+... .+...|..+..++...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4667777776653 34567777888888888888888888888887642 356677788888888888888888888776


Q ss_pred             hC
Q 036731          114 QG  115 (259)
Q Consensus       114 ~~  115 (259)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            53

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.05  E-value=0.00015  Score=43.16  Aligned_cols=64  Identities=17%  Similarity=0.077  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          127 IVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       127 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      ...+..+...+...|++++|...+++..+... .+...+..+..++...|++++|...+++..+.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            34555566666666666666666666655421 13445555555555566666666666555544

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.03  E-value=6.9e-05  Score=47.15  Aligned_cols=80  Identities=13%  Similarity=0.011  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 036731          145 NARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMD  224 (259)
Q Consensus       145 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  224 (259)
                      .|...+++..+... .+...+..+...+...|++++|...+++..+.. +.+...|..+..++...|++++|...+++..
T Consensus         3 ~a~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQGT-DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTTC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45666666666532 256677777778888888888888888877663 3346677777788888888888888888776


Q ss_pred             hC
Q 036731          225 KR  226 (259)
Q Consensus       225 ~~  226 (259)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            53

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.87  E-value=0.0001  Score=45.17  Aligned_cols=64  Identities=17%  Similarity=0.005  Sum_probs=42.3

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEV  190 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  190 (259)
                      +...+..+..+|...|++++|...|++..+.... +...|..+..++...|++++|...|++..+
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            4466667777777777777777777777665322 455666666777777777777777766554

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.85  E-value=0.00011  Score=45.02  Aligned_cols=63  Identities=16%  Similarity=0.150  Sum_probs=31.7

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMM   78 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~   78 (259)
                      ++..|..+...+.+.|++++|+..|++..+.. +.+...|..+..+|...|++++|.+.|++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34445555555555555555555555554432 2234445555555555555555555555444

>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=97.84  E-value=9.6e-05  Score=49.15  Aligned_cols=103  Identities=8%  Similarity=0.009  Sum_probs=77.2

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh----------hHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          138 CKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQM----------DKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~----------~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      .+.+.+++|...++...+.... +...|..+..++...+++          ++|...|++..+.. +-+...|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            4556788888888888877533 677888788888877664          48889998888773 23567788888888


Q ss_pred             HhcC-----------CHHHHHHHHHHHhhCCCccchHHHHHHHHHHHH
Q 036731          208 IRKN-----------ETSKVIELLRSMDKRNVMPYASILSIIVDLLVK  244 (259)
Q Consensus       208 ~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  244 (259)
                      ...|           ++++|.+.|++.++.  .|+...|...+....+
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~~~k  136 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMTAK  136 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHT
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHh
Confidence            8764           899999999998876  5677777766665443

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.81  E-value=0.0011  Score=50.43  Aligned_cols=143  Identities=10%  Similarity=-0.008  Sum_probs=75.5

Q ss_pred             CCCchHhHHHHHHHHh--hcCC---hhHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHH---cC--C---HHHHHHHHHHH
Q 036731           47 INPNVVTYNSLIHGFC--YAND---GNEAEYLFIEMMDRGLQSD-VVTFNVIMDELCK---NR--K---MDEATRLLDLM  112 (259)
Q Consensus        47 ~~~~~~~~~~li~~~~--~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~---~~--~---~~~a~~~~~~~  112 (259)
                      .+.+...|...+++..  ..++   ..+|..+|++..+.  .|+ ...|..+..+|..   .+  .   .......++..
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            3557777877776543  2333   46788899988887  343 3445444444431   00  0   01111111111


Q ss_pred             HhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 036731          113 IQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKG  192 (259)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  192 (259)
                      ......|.     +..+|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.+++.... 
T Consensus       268 ~a~~~~~~-----~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL-  339 (372)
T 3ly7_A          268 VTLPELNN-----LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL-  339 (372)
T ss_dssp             HTCGGGTT-----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HhcccCCc-----CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-
Confidence            11112222     34556555555555566666666666666653  45555555555666666666666666666554 


Q ss_pred             CCCcHHHH
Q 036731          193 VAPNCVIF  200 (259)
Q Consensus       193 ~~p~~~~~  200 (259)
                       .|...+|
T Consensus       340 -~P~~~t~  346 (372)
T 3ly7_A          340 -RPGANTL  346 (372)
T ss_dssp             -SCSHHHH
T ss_pred             -CCCcChH
Confidence             4555544

>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=97.81  E-value=8.8e-05  Score=49.34  Aligned_cols=100  Identities=8%  Similarity=-0.029  Sum_probs=78.9

Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCCh----------HHHHHHHHHHHHcCCCCChhhHH
Q 036731           97 CKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKL----------KNARELSQSLTRAGLMPNVVTYN  166 (259)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~  166 (259)
                      .+.+.+++|.+.+++..+..  |+     +...|..+..++...+++          ++|+..|++..+.... +...|.
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~--P~-----~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~   84 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN--PL-----DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVW   84 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC--CC-----CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHH
Confidence            35567899999999888753  44     568899888898888765          5999999999987533 567899


Q ss_pred             HHHHHHHhcC-----------ChhHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 036731          167 ITIHALCNDE-----------QMDKAHDLFLDMEVKGVAPNCVIFTTLMPS  206 (259)
Q Consensus       167 ~li~~~~~~~-----------~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  206 (259)
                      .+..+|...|           ++++|...|++..+.  .|+...|...+..
T Consensus        85 ~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~  133 (158)
T 1zu2_A           85 CIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEM  133 (158)
T ss_dssp             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            9999998774           899999999999987  6776666555543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.71  E-value=0.00052  Score=58.51  Aligned_cols=188  Identities=14%  Similarity=0.042  Sum_probs=111.5

Q ss_pred             HHHHHhcCChHHHHH-HHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCC
Q 036731           23 IDGLCKEGFVDKAKE-LFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRK  101 (259)
Q Consensus        23 l~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  101 (259)
                      .......+++++|.+ ++..+     + +......++..+.+.|.++.|+++.++-       .     .-.......|+
T Consensus       606 ~~~~~~~~~~~~a~~~~l~~i-----~-~~~~~~~~~~~l~~~~~~~~a~~~~~~~-------~-----~~f~~~l~~~~  667 (814)
T 3mkq_A          606 FQTLTLRGEIEEAIENVLPNV-----E-GKDSLTKIARFLEGQEYYEEALNISPDQ-------D-----QKFELALKVGQ  667 (814)
T ss_dssp             HHHHHHTTCHHHHHHHTGGGC-----C-CHHHHHHHHHHHHHTTCHHHHHHHCCCH-------H-----HHHHHHHHHTC
T ss_pred             HhHHHHhCCHHHHHHHHHhcC-----C-chHHHHHHHHHHHhCCChHHheecCCCc-------c-----hheehhhhcCC
Confidence            445566889999877 54221     1 1223377888888999999988776321       1     12344567899


Q ss_pred             HHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHH
Q 036731          102 MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKA  181 (259)
Q Consensus       102 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  181 (259)
                      ++.|.++.+.+     .       +...|..+...+.+.++++.|.+.|..+.+         |..+...+...|+.+..
T Consensus       668 ~~~A~~~~~~~-----~-------~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~  726 (814)
T 3mkq_A          668 LTLARDLLTDE-----S-------AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGL  726 (814)
T ss_dssp             HHHHHHHHTTC-----C-------CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHhh-----C-------cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHH
Confidence            99998886433     1       348999999999999999999999998753         33444444555665555


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--------CCCccch----HHHHHHHHHHHHhccc-
Q 036731          182 HDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK--------RNVMPYA----SILSIIVDLLVKNEIS-  248 (259)
Q Consensus       182 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------~~~~~~~----~~~~~l~~~~~~~g~~-  248 (259)
                      ..+-+.....|-      ++....+|.+.|++++|.+++.++..        +...|..    .+.......+...|+. 
T Consensus       727 ~~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~~~~~~~A~~lA~~~~~~~~~i~~~~~~~~~~L~~~~~~~  800 (814)
T 3mkq_A          727 VTLAKDAETTGK------FNLAFNAYWIAGDIQGAKDLLIKSQRFSEAAFLGSTYGLGDNEVNDIVTKWKENLILNGKNT  800 (814)
T ss_dssp             HHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHHHHcCChHHHHHHHHHhCCChHHHHHHHHHHHHHHHhccchh
Confidence            555444444331      22223334444555555555443321        1123334    4555555566667754 


Q ss_pred             -CCcchhh
Q 036731          249 -LNSIPQF  255 (259)
Q Consensus       249 -~~a~~~~  255 (259)
                       -+|+.-+
T Consensus       801 ~a~~l~~~  808 (814)
T 3mkq_A          801 VSERVCGA  808 (814)
T ss_dssp             HHTTBCCG
T ss_pred             HHHhhCCc
Confidence             3444433

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.63  E-value=0.001  Score=52.41  Aligned_cols=94  Identities=13%  Similarity=-0.002  Sum_probs=72.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcC---CCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHHhc-----C-CCCc-H
Q 036731          132 CLIDGLCKIGKLKNARELSQSLTRAG---LMPN----VVTYNITIHALCNDEQMDKAHDLFLDMEVK-----G-VAPN-C  197 (259)
Q Consensus       132 ~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~-~~p~-~  197 (259)
                      ..+..+.+.|++++|+.++++..+..   +.|+    ..+++.+..+|...|++++|+.++++..+.     | -.|+ .
T Consensus       292 ~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a  371 (429)
T 3qwp_A          292 KKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRG  371 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHH
Confidence            34556678899999999999987541   1222    457888999999999999999999987643     2 2333 3


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          198 VIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       198 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      .+++.|...|...|++++|..++++..+
T Consensus       372 ~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          372 VQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            5688899999999999999999998753

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.62  E-value=0.00026  Score=55.68  Aligned_cols=87  Identities=7%  Similarity=-0.072  Sum_probs=68.2

Q ss_pred             hcCChHHHHHHHHHHhhC---CCCC----chHhHHHHHHHHhhcCChhHHHHHHHHHHHc-----CC-CC-chhhHHHHH
Q 036731           28 KEGFVDKAKELFLQMKDE---NINP----NVVTYNSLIHGFCYANDGNEAEYLFIEMMDR-----GL-QS-DVVTFNVIM   93 (259)
Q Consensus        28 ~~~~~~~a~~~~~~~~~~---~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~-~~-~~~~~~~l~   93 (259)
                      ..|++++|+.++++..+.   -+.|    ...+++.|..+|...|++++|..++++..+.     |. .| ...+++.|.
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            357899999999887653   1122    2467899999999999999999999988642     21 22 246789999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHh
Q 036731           94 DELCKNRKMDEATRLLDLMIQ  114 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~  114 (259)
                      ..|...|++++|+.++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999987753

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.61  E-value=0.00051  Score=54.04  Aligned_cols=90  Identities=7%  Similarity=-0.052  Sum_probs=60.8

Q ss_pred             cCCHHHHHHHHHHHHh---CCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-----CC-CCC-hhhHHHH
Q 036731           99 NRKMDEATRLLDLMIQ---GGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA-----GL-MPN-VVTYNIT  168 (259)
Q Consensus        99 ~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l  168 (259)
                      .|++++|+.++++..+   .-+.|+.  .....+++.+..+|...|++++|+.++++..+.     |. .|+ ..+++.|
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~H--p~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nL  388 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSN--VYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKL  388 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTS--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhc--hHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHH
Confidence            4678888888887654   2233331  224577888888888889999888888876542     21 122 3356777


Q ss_pred             HHHHHhcCChhHHHHHHHHHHh
Q 036731          169 IHALCNDEQMDKAHDLFLDMEV  190 (259)
Q Consensus       169 i~~~~~~~~~~~a~~~~~~~~~  190 (259)
                      ...|...|++++|+.++++..+
T Consensus       389 a~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          389 GRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhccCHHHHHHHHHHHHH
Confidence            7777777777777777776543

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.60  E-value=0.0007  Score=53.31  Aligned_cols=93  Identities=10%  Similarity=0.010  Sum_probs=72.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhC--C-CCC----chHhHHHHHHHHhhcCChhHHHHHHHHHHHc-----C-CCC-ch
Q 036731           21 TIIDGLCKEGFVDKAKELFLQMKDE--N-INP----NVVTYNSLIHGFCYANDGNEAEYLFIEMMDR-----G-LQS-DV   86 (259)
Q Consensus        21 ~ll~~~~~~~~~~~a~~~~~~~~~~--~-~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~-~~~-~~   86 (259)
                      ..+..+.+.|++++|+.++++..+.  . +.|    ...+++.+...|...|++++|+.++++....     | ..| ..
T Consensus       292 ~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a  371 (429)
T 3qwp_A          292 KKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRG  371 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHH
Confidence            3455677889999999999998754  1 122    2467888999999999999999999987642     2 122 24


Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHH
Q 036731           87 VTFNVIMDELCKNRKMDEATRLLDLMI  113 (259)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~a~~~~~~~~  113 (259)
                      .+++.|...|...|++++|+.++++..
T Consensus       372 ~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          372 VQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            578899999999999999999998765

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.60  E-value=0.0052  Score=46.86  Aligned_cols=144  Identities=12%  Similarity=0.001  Sum_probs=97.0

Q ss_pred             CCCchhhHHHHHHHHH--HcC---CHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh---cC--ChHHHH---H
Q 036731           82 LQSDVVTFNVIMDELC--KNR---KMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK---IG--KLKNAR---E  148 (259)
Q Consensus        82 ~~~~~~~~~~l~~~~~--~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~--~~~~a~---~  148 (259)
                      .+.+...|...+++..  ..+   ...+|..+|++..+.  .|+     ....|..+.-+|..   .+  ......   .
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~-----~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~  262 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPE-----FTYARAEKALVDIVRHSQHPLDEKQLAALNT  262 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTT-----CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCC-----CHHHHHHHHHHHHHHhccCCCchhhHHHHHH
Confidence            4557788888776644  333   357899999999875  444     23455544444431   11  111111   1


Q ss_pred             HHHHHHH-cCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          149 LSQSLTR-AGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       149 ~~~~~~~-~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      .++.... ...+.+..+|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.+++.... 
T Consensus       263 a~~a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL-  339 (372)
T 3ly7_A          263 EIDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL-  339 (372)
T ss_dssp             HHHHHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-
Confidence            2221111 1124567788887777777899999999999999884  88888888888999999999999999998876 


Q ss_pred             CccchHHHH
Q 036731          228 VMPYASILS  236 (259)
Q Consensus       228 ~~~~~~~~~  236 (259)
                       .|...+|.
T Consensus       340 -~P~~~t~~  347 (372)
T 3ly7_A          340 -RPGANTLY  347 (372)
T ss_dssp             -SCSHHHHH
T ss_pred             -CCCcChHH
Confidence             45666655

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.42  E-value=0.011  Score=50.50  Aligned_cols=133  Identities=12%  Similarity=0.099  Sum_probs=92.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELC   97 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   97 (259)
                      ....++..+.+.|..+.|.++.+.         .   ..-.......|+++.|.++.+.+      .+...|..+...+.
T Consensus       631 ~~~~~~~~l~~~~~~~~a~~~~~~---------~---~~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al  692 (814)
T 3mkq_A          631 SLTKIARFLEGQEYYEEALNISPD---------Q---DQKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASL  692 (814)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHCCC---------H---HHHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCChHHheecCCC---------c---chheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHH
Confidence            346677777888888888766531         1   11133456789999999886433      36789999999999


Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 036731           98 KNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQ  177 (259)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  177 (259)
                      +.++++.|.+.|.++.               -|..+...+...|+.+....+.+.....|      -++....++.+.|+
T Consensus       693 ~~~~~~~A~~~y~~~~---------------d~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~~~~A~~~~~~~g~  751 (814)
T 3mkq_A          693 QRFNFKLAIEAFTNAH---------------DLESLFLLHSSFNNKEGLVTLAKDAETTG------KFNLAFNAYWIAGD  751 (814)
T ss_dssp             HTTCHHHHHHHHHHHT---------------CHHHHHHHHHHTTCHHHHHHHHHHHHHTT------CHHHHHHHHHHHTC
T ss_pred             HcCCHHHHHHHHHHcc---------------ChhhhHHHHHHcCCHHHHHHHHHHHHHcC------chHHHHHHHHHcCC
Confidence            9999999999999873               34555666666777777666666655543      23444455666777


Q ss_pred             hhHHHHHHHHHH
Q 036731          178 MDKAHDLFLDME  189 (259)
Q Consensus       178 ~~~a~~~~~~~~  189 (259)
                      +++|.+++.++.
T Consensus       752 ~~~a~~~~~~~~  763 (814)
T 3mkq_A          752 IQGAKDLLIKSQ  763 (814)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcC
Confidence            777777776543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.35  E-value=0.0011  Score=40.17  Aligned_cols=58  Identities=16%  Similarity=0.093  Sum_probs=36.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          133 LIDGLCKIGKLKNARELSQSLTRAGLMPNVV-TYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       133 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      ....+...|++++|...+++..+... .+.. .+..+..++...|++++|...|++..+.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEP-VGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCS-STHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            34556666777777777777666532 1344 5666666666777777777777766655

>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=97.20  E-value=0.019  Score=37.50  Aligned_cols=114  Identities=18%  Similarity=0.123  Sum_probs=83.1

Q ss_pred             hHHHHHHHHHHHHhcCCh------HHHHHHHHHHHHcCCCCChh-hHHHHHHH------HHhcCChhHHHHHHHHHHhcC
Q 036731          126 NIVAYGCLIDGLCKIGKL------KNARELSQSLTRAGLMPNVV-TYNITIHA------LCNDEQMDKAHDLFLDMEVKG  192 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~li~~------~~~~~~~~~a~~~~~~~~~~~  192 (259)
                      |..+|...+...-+.|+.      +...++|++.... ++|+.. .|...+..      +...++.++|.++|+.++...
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            568888888888888998      8888999988765 455432 22222222      234589999999999997663


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHH
Q 036731          193 VAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLL  242 (259)
Q Consensus       193 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  242 (259)
                      -.. ...|......-.+.|+...|.+++...+..+..| ...+...++-+
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~-~~~le~a~~nl  138 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP-LEMLEIALRNL  138 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC-HHHHHHHHHHH
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc-HHHHHHHHHhh
Confidence            333 7778888888889999999999999999887665 44555555444

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.15  E-value=0.011  Score=35.48  Aligned_cols=59  Identities=22%  Similarity=0.249  Sum_probs=49.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHH-HHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 036731           92 IMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIV-AYGCLIDGLCKIGKLKNARELSQSLTRAG  157 (259)
Q Consensus        92 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  157 (259)
                      ....+...|++++|...+++..+..  |+     +.. .+..+..++...|++++|...|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~--p~-----~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE--PV-----GKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--SS-----THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CC-----cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            4567788899999999999988753  33     456 88899999999999999999999998864

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.13  E-value=0.027  Score=38.03  Aligned_cols=103  Identities=12%  Similarity=0.154  Sum_probs=67.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCH
Q 036731           23 IDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKM  102 (259)
Q Consensus        23 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  102 (259)
                      .....+.|+++.|.++.+.+      -+...|..|.......|+++-|.+.|....+         +..+.-.|...|+.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~   76 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDV   76 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCH
T ss_pred             HHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCH
Confidence            44556778888888777665      2567788888888888888888888765543         34455566667776


Q ss_pred             HHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHH
Q 036731          103 DEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQS  152 (259)
Q Consensus       103 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  152 (259)
                      +...++-+.....            .-++....++...|+++++.+++.+
T Consensus        77 e~L~kla~iA~~~------------g~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           77 NKLSKMQNIAQTR------------EDFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHHHHHT------------TCHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHC------------ccHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6655554444333            2355556666677777777777744

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.11  E-value=0.012  Score=36.10  Aligned_cols=67  Identities=10%  Similarity=-0.042  Sum_probs=51.9

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhC------CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDE------NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      .++..+-.|...+.+.|++..|...|+...+.      +-.+....+..+..++.+.|+++.|...+++..+.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            45566777888888899999999988887653      11235667788888888888888888888888876

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.08  E-value=0.031  Score=37.77  Aligned_cols=131  Identities=8%  Similarity=0.054  Sum_probs=94.3

Q ss_pred             HHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHH
Q 036731           58 IHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGL  137 (259)
Q Consensus        58 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  137 (259)
                      .......|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.+.               .-+..+.-.|
T Consensus        12 F~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~---------------~D~~~L~~Ly   70 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQ---------------HSFDKLSFLY   70 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHT---------------TCHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHh---------------CCHHHHHHHH
Confidence            34456789999999987765      26788999999999999999999999876               3466677777


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 036731          138 CKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVI  217 (259)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  217 (259)
                      .-.|+.+.-..+-+.....|      -++.....+...|+++++.++|.+.-   ..|...      ......|..+.|.
T Consensus        71 ~~tg~~e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~---r~~eA~------~~A~t~g~~~~a~  135 (177)
T 3mkq_B           71 LVTGDVNKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGG---SLPLAY------AVAKANGDEAAAS  135 (177)
T ss_dssp             HHHTCHHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTT---CHHHHH------HHHHHTTCHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCC---ChHHHH------HHHHHcCcHHHHH
Confidence            78888887777666655544      25666667778899999999985533   222111      1122367778888


Q ss_pred             HHHHHHh
Q 036731          218 ELLRSMD  224 (259)
Q Consensus       218 ~~~~~~~  224 (259)
                      ++..++.
T Consensus       136 ~~~~~~~  142 (177)
T 3mkq_B          136 AFLEQAE  142 (177)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHhC
Confidence            8877653

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.06  E-value=0.01  Score=36.41  Aligned_cols=73  Identities=8%  Similarity=-0.022  Sum_probs=54.7

Q ss_pred             CchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731           84 SDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus        84 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      .+...+..+...+...++++.|...|+...+..............++..+..++.+.|+++.|...+++..+.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            3556677888889999999999999988765321110001125678899999999999999999999999875

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.03  E-value=0.019  Score=34.41  Aligned_cols=65  Identities=18%  Similarity=0.121  Sum_probs=31.5

Q ss_pred             chhhHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731           85 DVVTFNVIMDELCKNRK---MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus        85 ~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      +...+..+..++...++   .++|..++++..+.  .|+     ++.....+...+.+.|++++|...|+.+.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~-----~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPY-----NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTT-----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34444444444433332   35555555555543  222     3455555555555555555555555555544

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.00  E-value=0.026  Score=37.14  Aligned_cols=87  Identities=20%  Similarity=0.114  Sum_probs=65.3

Q ss_pred             hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC---ChhHHHHHHHHHHhcCCCC--cHHHHHHHHHHHHhcCCHHHHH
Q 036731          143 LKNARELSQSLTRAGLMPNVVTYNITIHALCNDE---QMDKAHDLFLDMEVKGVAP--NCVIFTTLMPSFIRKNETSKVI  217 (259)
Q Consensus       143 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~  217 (259)
                      ...+.+-|.+..+.|. ++..+.-.+.-++++++   +.+++..++++..+.+ .|  +...+-.+.-++.+.|++++|.
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            4556666766666654 57777777888888888   6679999999998874 24  3455666777889999999999


Q ss_pred             HHHHHHhhCCCccchH
Q 036731          218 ELLRSMDKRNVMPYAS  233 (259)
Q Consensus       218 ~~~~~~~~~~~~~~~~  233 (259)
                      +.++.+++.  .|+..
T Consensus        92 ~y~~~lL~i--eP~n~  105 (152)
T 1pc2_A           92 KYVRGLLQT--EPQNN  105 (152)
T ss_dssp             HHHHHHHHH--CTTCH
T ss_pred             HHHHHHHhc--CCCCH
Confidence            999999876  45433

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.82  E-value=0.03  Score=33.49  Aligned_cols=65  Identities=12%  Similarity=0.014  Sum_probs=29.4

Q ss_pred             CHHHHHHHHHHHHhcCC---hHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731           15 NTVTYNTIIDGLCKEGF---VDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      |+..+..+..++...++   .++|..++++..+.. +-+......+...+...|++++|+..|+.+.+.
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            44444444444432222   345555555554432 223344444444455555555555555555443

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.78  E-value=0.051  Score=35.53  Aligned_cols=104  Identities=13%  Similarity=0.132  Sum_probs=77.6

Q ss_pred             CCHHHHHHHHHHHHhcCCh------HHHHHHHHHHhhCCCCCchH-hHHHHHH------HHhhcCChhHHHHHHHHHHHc
Q 036731           14 PNTVTYNTIIDGLCKEGFV------DKAKELFLQMKDENINPNVV-TYNSLIH------GFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~li~------~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      -|..+|=..+...-+.|+.      ++..++|++.... ++|+.. .|...+.      .+...++.++|.++|+.+...
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            3788999999999989999      8999999988875 566532 1111111      123448999999999999765


Q ss_pred             CCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC
Q 036731           81 GLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRP  119 (259)
Q Consensus        81 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  119 (259)
                      +-.- ...|......=.+.|++..|.+++.+....+..|
T Consensus        90 hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           90 CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            3333 6666666677788999999999999999877665

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.51  E-value=0.031  Score=36.78  Aligned_cols=82  Identities=12%  Similarity=0.071  Sum_probs=62.0

Q ss_pred             hHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcC---ChhHHHHHHHHHHHcCCCC--chhhHHHHHHHHHHcCCHHHHH
Q 036731           32 VDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN---DGNEAEYLFIEMMDRGLQS--DVVTFNVIMDELCKNRKMDEAT  106 (259)
Q Consensus        32 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~  106 (259)
                      ...+.+-|.+....|. ++..+...+.-++++.+   +.++++.++++..+.. .|  ....+-.+.-+|.+.|++++|.
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            4456666766666553 67777777777888887   6668999999998874 23  3445556777889999999999


Q ss_pred             HHHHHHHhC
Q 036731          107 RLLDLMIQG  115 (259)
Q Consensus       107 ~~~~~~~~~  115 (259)
                      +.++.+.+.
T Consensus        92 ~y~~~lL~i  100 (152)
T 1pc2_A           92 KYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            999999885

>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=96.24  E-value=0.13  Score=37.93  Aligned_cols=92  Identities=12%  Similarity=0.029  Sum_probs=66.5

Q ss_pred             hhHHHHHHHHHHHcCCCCc---hhhHHHHHHHHHHc-----CCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHH
Q 036731           67 GNEAEYLFIEMMDRGLQSD---VVTFNVIMDELCKN-----RKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLC  138 (259)
Q Consensus        67 ~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  138 (259)
                      ...|...+++..+.  .|+   ...|..+...|...     |+.++|.+.|++..+.+  |+.    +..++......++
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~Ln--P~~----~id~~v~YA~~l~  250 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYC--SAH----DPDHHITYADALC  250 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHC--CTT----CSHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhC--CCC----CchHHHHHHHHHH
Confidence            34566666776665  344   45788888888884     89999999999988754  321    2477888888888


Q ss_pred             hc-CChHHHHHHHHHHHHcCCC--CChhhHH
Q 036731          139 KI-GKLKNARELSQSLTRAGLM--PNVVTYN  166 (259)
Q Consensus       139 ~~-~~~~~a~~~~~~~~~~~~~--~~~~~~~  166 (259)
                      +. |+.+.+.+.+++.......  |+....+
T Consensus       251 ~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          251 IPLNNRAGFDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             TTTTCHHHHHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             HhcCCHHHHHHHHHHHHcCCCCCCCChhHHH
Confidence            84 8899999999999887665  5544443

>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=96.12  E-value=0.075  Score=39.11  Aligned_cols=95  Identities=14%  Similarity=0.058  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh-----cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc-
Q 036731          102 MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK-----IGKLKNARELSQSLTRAGLMPNVVTYNITIHALCND-  175 (259)
Q Consensus       102 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-  175 (259)
                      ...|...+++..+.+  |+   -.+...|..+...|.+     .|+.++|.+.|++..+.+..-+..++......++.. 
T Consensus       179 l~~A~a~lerAleLD--P~---~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~  253 (301)
T 3u64_A          179 VHAAVMMLERACDLW--PS---YQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPL  253 (301)
T ss_dssp             HHHHHHHHHHHHHHC--TT---HHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTT
T ss_pred             HHHHHHHHHHHHHhC--CC---cccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhc
Confidence            466777788777653  32   1245789999999998     499999999999999864322366777778888774 


Q ss_pred             CChhHHHHHHHHHHhcCCC--CcHHHHH
Q 036731          176 EQMDKAHDLFLDMEVKGVA--PNCVIFT  201 (259)
Q Consensus       176 ~~~~~a~~~~~~~~~~~~~--p~~~~~~  201 (259)
                      |+.+.+.+.+++.......  |+....+
T Consensus       254 gd~~~a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          254 NNRAGFDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             TCHHHHHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             CCHHHHHHHHHHHHcCCCCCCCChhHHH
Confidence            9999999999999987555  5544333

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.98  E-value=1.2e-05  Score=62.89  Aligned_cols=202  Identities=12%  Similarity=0.146  Sum_probs=116.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDEL   96 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   96 (259)
                      ..|..|..+..+.+.+.+|++-|-+.      -|+..|..++....+.|.+++-..++...++..-  ++..=+.|+-+|
T Consensus        55 ~VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ay  126 (624)
T 3lvg_A           55 AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFAL  126 (624)
T ss_dssp             CCSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHH
T ss_pred             cHHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHH
Confidence            34777888888888777776655222      2566677888888888888888887765555422  344456688888


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-------------------
Q 036731           97 CKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG-------------------  157 (259)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------------  157 (259)
                      ++.++..+..+++.       .|      +..-...+.+-|...|.++.|.-+|..+....                   
T Consensus       127 Ak~~rL~elEefl~-------~~------N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaA  193 (624)
T 3lvg_A          127 AKTNRLAELEEFIN-------GP------NNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGA  193 (624)
T ss_dssp             HTSCSSSTTTSTTS-------CC------SSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTT
T ss_pred             HhhCcHHHHHHHHc-------CC------CcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHH
Confidence            88877655433321       12      22444555666666666666665554432110                   


Q ss_pred             -CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHH
Q 036731          158 -LMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILS  236 (259)
Q Consensus       158 -~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  236 (259)
                       -.-++.||-.+-.+|...+++.-|.-.--.+.-.   |+  -...++..|...|.+++...+++...... .....+|+
T Consensus       194 rKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFT  267 (624)
T 3lvg_A          194 RKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFT  267 (624)
T ss_dssp             TTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHH
T ss_pred             HhcCChhHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHH
Confidence             0125667777777777777766665443333321   11  22344555566666666666666554221 23455566


Q ss_pred             HHHHHHHHh
Q 036731          237 IIVDLLVKN  245 (259)
Q Consensus       237 ~l~~~~~~~  245 (259)
                      -|.-.|++-
T Consensus       268 ELaILYsKY  276 (624)
T 3lvg_A          268 ELAILYSKF  276 (624)
T ss_dssp             HHHHHHHSS
T ss_pred             HHHHHHHhc
Confidence            555555543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.98  E-value=0.045  Score=46.06  Aligned_cols=128  Identities=8%  Similarity=0.020  Sum_probs=79.6

Q ss_pred             HHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC-hhHHHHHHHHHHhc------CCCC-c---
Q 036731          129 AYGCLIDGLCKIGK-LKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQ-MDKAHDLFLDMEVK------GVAP-N---  196 (259)
Q Consensus       129 ~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~~------~~~p-~---  196 (259)
                      .-..++..+...++ ++.|..+++++.+.....+......++..+...++ --+|.+++.+..+.      ...+ +   
T Consensus       250 L~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          250 LMYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            34455666666666 58899999999887422122222233333333332 22455555444321      1111 1   


Q ss_pred             -------HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          197 -------CVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       197 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                             ......-.+.|...|+++.|.++-++....- +.+-.+|..|..+|...|+++.|+-.+|.
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNS  396 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINS  396 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhc
Confidence                   1122222456778999999999999988652 34678999999999999999999987764

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.90  E-value=0.42  Score=37.06  Aligned_cols=186  Identities=11%  Similarity=0.063  Sum_probs=97.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCC-CchHhHHHHHHHHhhc-CChhHHHHHHHHHHHcC-------CCCc
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENIN-PNVVTYNSLIHGFCYA-NDGNEAEYLFIEMMDRG-------LQSD   85 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~~-------~~~~   85 (259)
                      +...+..|.......|+.-...++.+.+-....+ ....+....+.-..+. +.....-..+......|       ...|
T Consensus        32 ~~k~~~LL~~L~~~~g~~vsr~~L~~~lW~~~~~~~a~~~L~~~i~rLRk~L~~~~~~~~~i~~~~~~GY~l~~~~~~~D  111 (388)
T 2ff4_A           32 TPKQRAVLAMLVINRNRPVGVDALITALWEEWPPSGARASIHSYVSNLRKLLGGAGIDPRVVLAAAPPGYRLSIPDNTCD  111 (388)
T ss_dssp             SHHHHHHHHHHHHTTTSEEEHHHHHHHHHTTCCCTTHHHHHHHHHHHHHHHHGGGTSCHHHHEEECSSEEEECCCGGGBH
T ss_pred             ChHHHHHHHHHHhCCCCcccHHHHHHHhCCCCCChhHHHHHHHHHHHHHHhhcccCCCCceEEEEECCEEEEcCCCccch
Confidence            5556665555556667766666677666544221 1233444444332221 11000000000000111       1223


Q ss_pred             hhhHHHHHHHHH---HcCCHHHHHHHHHHHHhCCCCCC-------Cc--------cchhHHHHHHHHHHHHhcCChHHHH
Q 036731           86 VVTFNVIMDELC---KNRKMDEATRLLDLMIQGGVRPD-------AF--------CEINIVAYGCLIDGLCKIGKLKNAR  147 (259)
Q Consensus        86 ~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~~~~~-------~~--------~~~~~~~~~~l~~~~~~~~~~~~a~  147 (259)
                      ...|..++....   ..|+.+.|...+.+....--.+-       .+        ...-..+...++..+...|+++++.
T Consensus       112 ~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~~~a~  191 (388)
T 2ff4_A          112 LGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVI  191 (388)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Confidence            444555544332   35788888888888765321110       00        0001123334556666778888888


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHh-----cCCCCcHHHHH
Q 036731          148 ELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEV-----KGVAPNCVIFT  201 (259)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~p~~~~~~  201 (259)
                      ..+..+.... +.+...|..+|.++...|+..+|++.|+....     .|+.|+..+-.
T Consensus       192 ~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          192 AELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            7777776653 33666788888888888888888888777643     37777766543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.81  E-value=0.95  Score=40.56  Aligned_cols=191  Identities=14%  Similarity=0.095  Sum_probs=115.6

Q ss_pred             HHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCc-------------
Q 036731           56 SLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAF-------------  122 (259)
Q Consensus        56 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------------  122 (259)
                      .++..+...+.++-+.++...     .+.+....-.+..+|...|++++|.+.|.+... ++..+..             
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~-----~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGW-----LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHH-----SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhh-----ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccc
Confidence            344445555666555543322     122444445567788899999999999976521 2211111             


Q ss_pred             ----cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 036731          123 ----CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN----VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVA  194 (259)
Q Consensus       123 ----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  194 (259)
                          ...-..-|..++..+-+.+.++.+.++-+...+....-+    ...|..+.+.+...|++++|...+-.+.....+
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r  970 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK  970 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH
Confidence                001124578888999999999999988877665422112    125788999999999999999999888776443


Q ss_pred             CcHHHHHHHHHHHHhcCCH------------HHHHHHHHHHhh-C-CCccchHHHHHHHHHHHHhcccCCcchh
Q 036731          195 PNCVIFTTLMPSFIRKNET------------SKVIELLRSMDK-R-NVMPYASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       195 p~~~~~~~l~~~~~~~~~~------------~~a~~~~~~~~~-~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                        ......|+..++..|..            +++.+++..--+ . .+.....-|..|=..+...|++.+|..+
T Consensus       971 --~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~v 1042 (1139)
T 4fhn_B          971 --KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAI 1042 (1139)
T ss_dssp             --HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHH
T ss_pred             --HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHH
Confidence              45566777766665554            444444432211 1 1111122344444445778888887664

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.68  E-value=0.45  Score=40.25  Aligned_cols=134  Identities=11%  Similarity=0.005  Sum_probs=82.8

Q ss_pred             HHHHHHHHhhcCC-hhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCC-HHHHHHHHHHHHhC------CCCCCCc---
Q 036731           54 YNSLIHGFCYAND-GNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRK-MDEATRLLDLMIQG------GVRPDAF---  122 (259)
Q Consensus        54 ~~~li~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~------~~~~~~~---  122 (259)
                      ...++..+...++ ++.|..+++++.......+......++..+...++ --+|.+++.+..+.      ...+...   
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~  330 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSA  330 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccc
Confidence            3455666666666 58899999999887332222222233333333332 23455555444321      1111110   


Q ss_pred             --cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 036731          123 --CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN-VVTYNITIHALCNDEQMDKAHDLFLDME  189 (259)
Q Consensus       123 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~  189 (259)
                        ...+......-.+.+...|+++.|+.+-++....  .|+ -.+|..|..+|...|+++.|+-.++.+.
T Consensus       331 ~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          331 RLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence              0001123344456677899999999999998886  344 6699999999999999999999998874

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.65  E-value=0.089  Score=40.80  Aligned_cols=66  Identities=5%  Similarity=-0.030  Sum_probs=38.7

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHH-----hCCCCCC
Q 036731           54 YNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMI-----QGGVRPD  120 (259)
Q Consensus        54 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~  120 (259)
                      ...++..+...|+++++...+..+.... +.+...|..+|.++.+.|+..+|++.|+++.     +.|+.|.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~  244 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG  244 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCC
Confidence            3445555566666666666666665542 3355566666666666666666666666543     2355554

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=95.45  E-value=0.21  Score=30.10  Aligned_cols=61  Identities=11%  Similarity=0.186  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHH
Q 036731          180 KAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDL  241 (259)
Q Consensus       180 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  241 (259)
                      +..+-++.+....+-|++.+..+.+++|.+.+++..|.++|+-++.+ +.+...+|..+++-
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lqE   88 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE   88 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHHH
Confidence            45555555566666777777777777777777777777777666543 22233455555543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.44  E-value=1.2  Score=39.88  Aligned_cols=215  Identities=10%  Similarity=0.065  Sum_probs=131.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCC-----------------
Q 036731           21 TIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQ-----------------   83 (259)
Q Consensus        21 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-----------------   83 (259)
                      .++..+.+.+.++-+.++.....     -+...--.+..++...|++++|.+.|.+... |+.                 
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~-----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLN-----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcc-----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccc
Confidence            45566667777777766554432     2344445567788999999999999976531 110                 


Q ss_pred             ------CchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 036731           84 ------SDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG  157 (259)
Q Consensus        84 ------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  157 (259)
                            .-..-|..++..+-+.+.++.+.++-....+.....+.  ......|..+.+++...|++++|...+-.+....
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~--~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~  968 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDE--DLSIAITHETLKTACAAGKFDAAHVALMVLSTTP  968 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCH--HHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSS
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCCh--hhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHH
Confidence                  01234677888899999999998887766654222111  1123478899999999999999999998887654


Q ss_pred             CCCChhhHHHHHHHHHhcCCh------------hHHHHHHHHHHhc--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH-
Q 036731          158 LMPNVVTYNITIHALCNDEQM------------DKAHDLFLDMEVK--GVAPNCVIFTTLMPSFIRKNETSKVIELLRS-  222 (259)
Q Consensus       158 ~~~~~~~~~~li~~~~~~~~~------------~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~-  222 (259)
                      .+  ......|+...+..|..            +++.+++....+.  .....+.-|..|-.-+...|++..|..++-+ 
T Consensus       969 ~r--~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~ 1046 (1139)
T 4fhn_B          969 LK--KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEK 1046 (1139)
T ss_dssp             SC--HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHH
T ss_pred             HH--HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHH
Confidence            33  44666677766665543            3444444332211  1111123456666666778888776665543 


Q ss_pred             HhhC----CC------ccchHHHHHHHHHHHHh
Q 036731          223 MDKR----NV------MPYASILSIIVDLLVKN  245 (259)
Q Consensus       223 ~~~~----~~------~~~~~~~~~l~~~~~~~  245 (259)
                      +.+.    ..      ..-...|..+|.++.--
T Consensus      1047 ~~RL~~~~~~~~~~~~~~q~~~yL~~INaLslv 1079 (1139)
T 4fhn_B         1047 LSRYISTTELIGKKERTFIIEHYLIVLNTLELL 1079 (1139)
T ss_dssp             HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHhhhccccccchhHHHHHHHHHHHHHHHhcC
Confidence            3221    01      11234666777776554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.14  E-value=0.26  Score=31.21  Aligned_cols=88  Identities=10%  Similarity=0.037  Sum_probs=60.9

Q ss_pred             HhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhH---HHHHHHHHHHcCCC-CchhhHHHHHHHHHHcCCH
Q 036731           27 CKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNE---AEYLFIEMMDRGLQ-SDVVTFNVIMDELCKNRKM  102 (259)
Q Consensus        27 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~  102 (259)
                      ........+.+-|.+....|. ++..+--.+.-++.+.+....   ++.+++++.+.+.+ -.....-.|.-++.+.|++
T Consensus        12 ~~~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y   90 (126)
T 1nzn_A           12 VSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEY   90 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             CCHHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhH
Confidence            333445556666666655553 666666667777777777666   88888888876421 1333444567789999999


Q ss_pred             HHHHHHHHHHHhC
Q 036731          103 DEATRLLDLMIQG  115 (259)
Q Consensus       103 ~~a~~~~~~~~~~  115 (259)
                      ++|.+.++.+.+.
T Consensus        91 ~~A~~~~~~lL~~  103 (126)
T 1nzn_A           91 EKALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999999875

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.07  E-value=0.35  Score=30.61  Aligned_cols=85  Identities=19%  Similarity=0.085  Sum_probs=61.3

Q ss_pred             cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhH---HHHHHHHHHhcCCCC--cHHHHHHHHHHHHhcCCHH
Q 036731          140 IGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDK---AHDLFLDMEVKGVAP--NCVIFTTLMPSFIRKNETS  214 (259)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~---a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~~~~~  214 (259)
                      ......+.+-|......|. |+..+--.+.-+++++.+...   +..+++++...+ .|  .....-.|.-++.+.|+++
T Consensus        14 ~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~   91 (126)
T 1nzn_A           14 VEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYE   91 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHH
Confidence            3345556666666655554 577777777778888877665   888999988764 23  3344555667889999999


Q ss_pred             HHHHHHHHHhhC
Q 036731          215 KVIELLRSMDKR  226 (259)
Q Consensus       215 ~a~~~~~~~~~~  226 (259)
                      +|.+.++.+++.
T Consensus        92 ~A~~~~~~lL~~  103 (126)
T 1nzn_A           92 KALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999999876

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=94.69  E-value=0.46  Score=30.34  Aligned_cols=62  Identities=13%  Similarity=0.205  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHH
Q 036731          180 KAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLL  242 (259)
Q Consensus       180 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  242 (259)
                      +..+-++.+...++-|++.+..+.+++|.+.+++..|.++|+-++.+ +.+...+|..+++-+
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lqEl  132 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQEL  132 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHHHH
Confidence            45556666666777888888888888888888888888888877654 233455676666543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.50  E-value=0.56  Score=30.22  Aligned_cols=68  Identities=13%  Similarity=0.098  Sum_probs=55.3

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc
Q 036731          161 NVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVM  229 (259)
Q Consensus       161 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  229 (259)
                      +.......+..+...|.-++-.+++..+... .+|++...-.+..+|.+.|+..++.+++.+.-+.|++
T Consensus        90 ~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           90 LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            4556677788888889989888888886443 4778888888999999999999999999999888865

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.45  E-value=0.73  Score=36.26  Aligned_cols=101  Identities=10%  Similarity=-0.050  Sum_probs=72.9

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCChhhH
Q 036731           87 VTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG-LMPNVVTY  165 (259)
Q Consensus        87 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~  165 (259)
                      .+...+...|.+.|+++.|.+.+.++...-..+..    -...+..+++.+...+++..+...+++....- -.++....
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~----kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~  207 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGA----KIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERR  207 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCS----HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHH----HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHH
Confidence            36778999999999999999999999875444443    56889999999999999999999999876431 11222221


Q ss_pred             HHH----HHHHHhcCChhHHHHHHHHHHhc
Q 036731          166 NIT----IHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       166 ~~l----i~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      +.+    ...+...+++..|...|-+....
T Consensus       208 ~~lk~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          208 NRYKTYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhChHHHHHHHHHHHhcc
Confidence            111    22234578898888888776544

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.34  E-value=0.61  Score=30.04  Aligned_cols=140  Identities=14%  Similarity=0.109  Sum_probs=83.4

Q ss_pred             HhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHH
Q 036731           27 CKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEAT  106 (259)
Q Consensus        27 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  106 (259)
                      .-.|.+++..++..+...+   .+..-||.+|--....-+-+-..++++..-..   .|..          .+|++....
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDis----------~C~NlKrVi   81 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDLD----------KCQNLKSVV   81 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCGG----------GCSCTHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCcH----------hhhcHHHHH
Confidence            4467777777777776654   24445555555444444444444444433221   1221          234444444


Q ss_pred             HHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHH
Q 036731          107 RLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFL  186 (259)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  186 (259)
                      ..+-.+-   .        +.......++.....|.-++-.+++..+... .+|++...-.+..+|.+.|+..++.+++.
T Consensus        82 ~C~~~~n---~--------~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~  149 (172)
T 1wy6_A           82 ECGVINN---T--------LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLI  149 (172)
T ss_dssp             HHHHHTT---C--------CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHhc---c--------hHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHH
Confidence            4443221   1        1256666777777888888888888775442 35677777778888888888888888888


Q ss_pred             HHHhcCCC
Q 036731          187 DMEVKGVA  194 (259)
Q Consensus       187 ~~~~~~~~  194 (259)
                      +.-+.|++
T Consensus       150 ~AC~kG~k  157 (172)
T 1wy6_A          150 EACKKGEK  157 (172)
T ss_dssp             HHHHTTCH
T ss_pred             HHHHhhhH
Confidence            88887754

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.74  E-value=0.87  Score=35.82  Aligned_cols=97  Identities=11%  Similarity=-0.005  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhC--CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc---CCCCchhh--HH
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDE--NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR---GLQSDVVT--FN   90 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~~   90 (259)
                      ++..+...|.+.|+++.|.+.|.++...  +..--...+-.+++.+...+++..+...+.+....   +..|+...  ..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            4667889999999999999999999865  33344667888889999999999999999887642   22222221  11


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh
Q 036731           91 VIMDELCKNRKMDEATRLLDLMIQ  114 (259)
Q Consensus        91 ~l~~~~~~~~~~~~a~~~~~~~~~  114 (259)
                      .-...+...+++..|.+.|-+...
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhc
Confidence            112223457889998888877654

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.61  E-value=0.0011  Score=52.26  Aligned_cols=181  Identities=9%  Similarity=0.060  Sum_probs=118.8

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHH
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   93 (259)
                      -|+..|..+|.+..+.|++++-.+.+...++..  .++..=+.|+-+|++.++..+-.+++    .   .||..-...+.
T Consensus        81 ~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayAk~~rL~elEefl----~---~~N~A~iq~VG  151 (624)
T 3lvg_A           81 DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVG  151 (624)
T ss_dssp             SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHHTSCSSSTTTSTT----S---CCSSSCTHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHHhhCcHHHHHHHH----c---CCCcccHHHHH
Confidence            377789999999999999999999997776652  34455578999999999987754443    1   35666667778


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCCc--------------cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 036731           94 DELCKNRKMDEATRLLDLMIQGGVRPDAF--------------CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM  159 (259)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  159 (259)
                      +-|...|.++.|.-+|..+..-..-....              -..++.||-.+-.+|...+++..|.-.--.+.-.   
T Consensus       152 Drcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvh---  228 (624)
T 3lvg_A          152 DRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH---  228 (624)
T ss_dssp             HHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---
T ss_pred             HHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhccc---
Confidence            88888888887777776543211000000              1225689999999999999888776665444422   


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 036731          160 PNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR  209 (259)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  209 (259)
                        ..-...++..|...|.+++-+.+++.-.... +.....|+-|.-.|++
T Consensus       229 --adeL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsK  275 (624)
T 3lvg_A          229 --ADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK  275 (624)
T ss_dssp             --SSCCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHS
T ss_pred             --HHHHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHh
Confidence              1123345556667777777777776655321 3344555555544444

>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=93.53  E-value=0.88  Score=29.08  Aligned_cols=63  Identities=14%  Similarity=0.161  Sum_probs=50.8

Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          142 KLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      |.-+..+-++.+...++.|++......+++|-+.+++..|.++|+-++.+ +.+...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            44467777778888889999999999999999999999999999998876 2344556777664

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=93.30  E-value=0.77  Score=27.69  Aligned_cols=49  Identities=12%  Similarity=0.159  Sum_probs=34.6

Q ss_pred             ChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 036731           66 DGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQ  114 (259)
Q Consensus        66 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  114 (259)
                      |.-+..+-++.+....+.|++......+++|.+.+++..|.++|+-++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4445666666666667777777777777777777777777777777663

>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=92.57  E-value=2.9  Score=32.42  Aligned_cols=171  Identities=12%  Similarity=0.008  Sum_probs=110.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhC-CCC---CchHhHHHHHHHHhhc-CChhHHHHHHHHHHHcCCCCchhhH--
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDE-NIN---PNVVTYNSLIHGFCYA-NDGNEAEYLFIEMMDRGLQSDVVTF--   89 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~---~~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~--   89 (259)
                      .+...|...|.+.|+.++..+++...+.- +.-   -.......++..+... +..+.-.++..+..+.... ...+|  
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~r~flr   98 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQ-EKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH-TTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence            45667889999999999999999887532 111   1344567788877664 3344445555554432111 22333  


Q ss_pred             ----HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc--CCCCChh
Q 036731           90 ----NVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA--GLMPNVV  163 (259)
Q Consensus        90 ----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~  163 (259)
                          ..++..|...|++.+|.+++.++.+.=...+. ...-..++..-+..|...+++.++...+......  .+.+++.
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd-~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~  177 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRELKKLDD-KNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPK  177 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSC-THHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhcccc-chhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHH
Confidence                25789999999999999999888753222221 1224567788888999999999999999887543  2223333


Q ss_pred             hHHHH----HHHHH-hcCChhHHHHHHHHHH
Q 036731          164 TYNIT----IHALC-NDEQMDKAHDLFLDME  189 (259)
Q Consensus       164 ~~~~l----i~~~~-~~~~~~~a~~~~~~~~  189 (259)
                      .-..+    ...+. ..+++..|...|-+..
T Consensus       178 i~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          178 VQGALDLQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHhccCHHHHHHHHHHHH
Confidence            32221    22344 6788998888776653

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.14  E-value=3.6  Score=32.52  Aligned_cols=231  Identities=10%  Similarity=0.054  Sum_probs=125.7

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHhhC-CCCCchHh--HHHHHHHHhhcCChhHH--HHHHHHHHH--cC-CCC-
Q 036731           14 PNTVTYNTIIDGLCKEGFVDKAKELFLQMKDE-NINPNVVT--YNSLIHGFCYANDGNEA--EYLFIEMMD--RG-LQS-   84 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~--~~~li~~~~~~~~~~~a--~~~~~~~~~--~~-~~~-   84 (259)
                      ........++..|.+.|+++...+.+..+.+. |..+...+  .+.++.........+..  ..+.+.+..  .| +-. 
T Consensus        54 s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~~d~~~~~~~i~~l~~vte~kiflE  133 (445)
T 4b4t_P           54 SSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKSLDLNTRISVIETIRVVTENKIFVE  133 (445)
T ss_dssp             TCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHCCSSSSSCCCCCC
T ss_pred             hHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHhccchHHH
Confidence            34556777888888888888887777665543 32222211  12222222223332221  111111110  11 111 


Q ss_pred             --chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHH----cCC
Q 036731           85 --DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTR----AGL  158 (259)
Q Consensus        85 --~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~  158 (259)
                        .......|...+...|++.+|.+++..+...-..... ...-...+...++.|...+++..|..++++...    ...
T Consensus       134 ~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~-~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~  212 (445)
T 4b4t_P          134 VERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSME-MSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPK  212 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSC-HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhccc-HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCC
Confidence              1223456788899999999999999998632222211 112346788889999999999999999998743    222


Q ss_pred             CCC--hhhHHHHHHHHHhcCChhHHHHHHHHHHhc-CCCCcHHHHH----HHHHHHHhcCCHHHHHHHHHHHhhCCCccc
Q 036731          159 MPN--VVTYNITIHALCNDEQMDKAHDLFLDMEVK-GVAPNCVIFT----TLMPSFIRKNETSKVIELLRSMDKRNVMPY  231 (259)
Q Consensus       159 ~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  231 (259)
                      .|+  ...+...+..+...+++.+|...|.++.+. ...-+...+.    .++.+..-.+....-..++........-++
T Consensus       213 ~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~iLa~~~~~~~~ll~~~~~~~~~~~  292 (445)
T 4b4t_P          213 YESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLVLSPYGNLQNDLIHKIQNDNNLKK  292 (445)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSSCSSTTHHHHHSHHHHSSCHH
T ss_pred             cHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHhhcccccc
Confidence            222  234566677778889999988888777543 1111222222    122222222222222333333322222356


Q ss_pred             hHHHHHHHHHHHHh
Q 036731          232 ASILSIIVDLLVKN  245 (259)
Q Consensus       232 ~~~~~~l~~~~~~~  245 (259)
                      ...+..++.+|...
T Consensus       293 l~~~~~L~k~f~~~  306 (445)
T 4b4t_P          293 LESQESLVKLFTTN  306 (445)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHhc
Confidence            67788888887654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.53  E-value=2.1  Score=28.54  Aligned_cols=100  Identities=13%  Similarity=0.115  Sum_probs=64.4

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCh-------hhHHHHHHHHHhcCChhHHHHHHHHHHhcC--C--
Q 036731          126 NIVAYGCLIDGLCKIGKLKNARELSQSLTRAG-LMPNV-------VTYNITIHALCNDEQMDKAHDLFLDMEVKG--V--  193 (259)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~--  193 (259)
                      +..++-.-++.+...|.++.|+-+...+.... ..|+.       .++..+..++...+++..|...|++..+..  +  
T Consensus        19 ~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k   98 (167)
T 3ffl_A           19 SHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSK   98 (167)
T ss_dssp             --CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhc
Confidence            34556666777888899999888877755321 22332       255677788889999999999998854320  0  


Q ss_pred             CC--------------------cHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          194 AP--------------------NCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       194 ~p--------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      .+                    +.+.--.+..+|.+.+++++|..+++.+..
T Consensus        99 ~~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A           99 TSKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             ------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             CCCccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            01                    112223356777788888888888776543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=90.66  E-value=2.4  Score=28.29  Aligned_cols=106  Identities=11%  Similarity=0.068  Sum_probs=67.5

Q ss_pred             ccccCCHHH--HHHHHHHHHhcCChHHHHHHHHHHhhC-CCCCch-------HhHHHHHHHHhhcCChhHHHHHHHHHHH
Q 036731           10 VVCKPNTVT--YNTIIDGLCKEGFVDKAKELFLQMKDE-NINPNV-------VTYNSLIHGFCYANDGNEAEYLFIEMMD   79 (259)
Q Consensus        10 ~~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~-------~~~~~li~~~~~~~~~~~a~~~~~~~~~   79 (259)
                      .|..|....  +-.-+..+...|.++.|+-+.+.+... +..|+.       .++..+..++...+++..|...|++..+
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            345554444  344577788999999999888876543 112331       2456677888999999999999998642


Q ss_pred             cC------------------------CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 036731           80 RG------------------------LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        80 ~~------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  115 (259)
                      ..                        ...+...---+..+|...+++++|+.+++.+...
T Consensus        92 ~~k~l~k~~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A           92 QKKALSKTSKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             HHHCC--------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             HHHHHhcCCCccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            11                        0111133344778899999999999999876543

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=90.31  E-value=1.9  Score=25.91  Aligned_cols=87  Identities=15%  Similarity=0.080  Sum_probs=60.8

Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHH
Q 036731          141 GKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELL  220 (259)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  220 (259)
                      -..++|..+-+.+...+.  ...+--+-+..+.+.|++++|..+.+.+.    .||...|.+|-.  .+.|..+++...+
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL   91 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNP----WPALEPWFALCE--WHLGLGAALDRRL   91 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCC----CGGGHHHHHHHH--HHTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHH
Confidence            357888888888887653  22222223445678999999998875543    788888877654  5889999999988


Q ss_pred             HHHhhCCCccchHHHH
Q 036731          221 RSMDKRNVMPYASILS  236 (259)
Q Consensus       221 ~~~~~~~~~~~~~~~~  236 (259)
                      .++...| .|....|.
T Consensus        92 ~~la~sg-~p~~q~Fa  106 (115)
T 2uwj_G           92 AGLGGSS-DPALADFA  106 (115)
T ss_dssp             HHHHTCS-SHHHHHHH
T ss_pred             HHHHhCC-CHHHHHHH
Confidence            8888776 45444444

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=90.00  E-value=2  Score=25.82  Aligned_cols=87  Identities=15%  Similarity=0.092  Sum_probs=61.2

Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHH
Q 036731          141 GKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELL  220 (259)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  220 (259)
                      -..++|..+-+.+...+.  ...+--+-+..+.+.|++++|..+.+.+.    .||...|.+|-.  .+.|..+++...+
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL   92 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALESRL   92 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHH
Confidence            357888888888887653  22222223445678999999998876554    788888877654  5789999999888


Q ss_pred             HHHhhCCCccchHHHH
Q 036731          221 RSMDKRNVMPYASILS  236 (259)
Q Consensus       221 ~~~~~~~~~~~~~~~~  236 (259)
                      .++...| .|....|.
T Consensus        93 ~~la~sg-~p~~q~Fa  107 (116)
T 2p58_C           93 NRLARSQ-DPRIQTFV  107 (116)
T ss_dssp             HHHTTCC-CHHHHHHH
T ss_pred             HHHHhCC-CHHHHHHH
Confidence            8888776 45444444

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=89.85  E-value=2.1  Score=30.04  Aligned_cols=182  Identities=12%  Similarity=0.053  Sum_probs=88.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhCCCCCchHh--HHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhh--HHHHHHHHH
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDENINPNVVT--YNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVT--FNVIMDELC   97 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~   97 (259)
                      .+...++.|+.+.+..+++.+.+.|..++...  -.+.+...+..|+.+-    ++.+.+.|..++...  -.+.+...+
T Consensus        12 ~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~----v~~Ll~~g~~~~~~~~~g~t~l~~A~   87 (241)
T 1k1a_A           12 PLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSV----VRLLVTAGASPMALDRHGQTAAHLAC   87 (241)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHH----HHHHHHTTCCTTCCCTTSCCHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCCHHH----HHHHHHcCCCccccCCCCCCHHHHHH
Confidence            45566778999988888887766665544321  1223444556677654    444555665554321  123445556


Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhh---HHHHHHHHHh
Q 036731           98 KNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVT---YNITIHALCN  174 (259)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~li~~~~~  174 (259)
                      ..|+.+-+..+++.....+..++.   .+..-.+ .+...+..|+.+-    ++.+.+.|..++...   -...+...+.
T Consensus        88 ~~~~~~~~~~Ll~~~~~~~~~~~~---~~~~g~t-~L~~A~~~~~~~~----~~~Ll~~g~~~~~~~~~~g~t~L~~A~~  159 (241)
T 1k1a_A           88 EHRSPTCLRALLDSAAPGTLDLEA---RNYDGLT-ALHVAVNTECQET----VQLLLERGADIDAVDIKSGRSPLIHAVE  159 (241)
T ss_dssp             HTTCHHHHHHHHHHSCTTSCCTTC---CCTTSCC-HHHHHHHHTCHHH----HHHHHHTTCCTTCCCTTTCCCHHHHHHH
T ss_pred             HcCCHHHHHHHHHcCCCccccccc---cCcCCCc-HHHHHHHcCCHHH----HHHHHHcCCCcccccccCCCcHHHHHHH
Confidence            677776655555443211112111   0111122 2333445566544    444445555444221   2233444456


Q ss_pred             cCChhHHHHHHHHHHhcCCCCcHH---HHHHHHHHHHhcCCHHHHHHHH
Q 036731          175 DEQMDKAHDLFLDMEVKGVAPNCV---IFTTLMPSFIRKNETSKVIELL  220 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~p~~~---~~~~l~~~~~~~~~~~~a~~~~  220 (259)
                      .|+.+-+..++    +.|..++..   -.+. +...+..|..+-+..++
T Consensus       160 ~~~~~~v~~Ll----~~g~~~~~~~~~g~t~-L~~A~~~~~~~~v~~Ll  203 (241)
T 1k1a_A          160 NNSLSMVQLLL----QHGANVNAQMYSGSSA-LHSASGRGLLPLVRTLV  203 (241)
T ss_dssp             TTCHHHHHHHH----HTTCCTTCBCTTSCBH-HHHHHHHTCHHHHHHHH
T ss_pred             cCCHHHHHHHH----HcCCCCCCcCCCCCCH-HHHHHHcCCHHHHHHHH
Confidence            67765444444    445444321   1222 33334566665444444

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.61  E-value=6.5  Score=31.07  Aligned_cols=194  Identities=12%  Similarity=0.107  Sum_probs=121.5

Q ss_pred             CChHHHHHHHHHHhhC-----CCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHH-cCCCCchhh--HHHHHHHHHHcCC
Q 036731           30 GFVDKAKELFLQMKDE-----NINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMD-RGLQSDVVT--FNVIMDELCKNRK  101 (259)
Q Consensus        30 ~~~~~a~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~--~~~l~~~~~~~~~  101 (259)
                      |+++.|++.+..+.+.     ...-.......++..|...++++...+.+.-+.. +|..+...+  ...++........
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            6788888877666542     2344566788899999999999998887776653 333322222  1222333333333


Q ss_pred             HHHH--HHHHHHHHhCCCCCCC-cc-chhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc--CCCCC---hhhHHHHHHHH
Q 036731          102 MDEA--TRLLDLMIQGGVRPDA-FC-EINIVAYGCLIDGLCKIGKLKNARELSQSLTRA--GLMPN---VVTYNITIHAL  172 (259)
Q Consensus       102 ~~~a--~~~~~~~~~~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~li~~~  172 (259)
                      .+..  ..+.+.+.  .+.... +. .........|...+...|++.+|..++..+...  |....   ...+...++.|
T Consensus       110 ~d~~~~~~~i~~l~--~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          110 LDLNTRISVIETIR--VVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             THHHHHHHHHHCCS--SSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHH--HHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            3322  22222111  111110 00 012345677889999999999999999998642  22211   34667778889


Q ss_pred             HhcCChhHHHHHHHHHHh----cCCCCcH--HHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          173 CNDEQMDKAHDLFLDMEV----KGVAPNC--VIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       173 ~~~~~~~~a~~~~~~~~~----~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      ...+++..|..+++++..    ....|+.  ..+...+..+...+++.+|.+.|.++.+
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            999999999999998753    2222222  3466777888889999999998888754

>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=88.28  E-value=4.8  Score=27.81  Aligned_cols=55  Identities=15%  Similarity=0.132  Sum_probs=35.0

Q ss_pred             CHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 036731          101 KMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP  160 (259)
Q Consensus       101 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (259)
                      ....+..+|..|...|+...     ....|......+...|++.+|..+|+.-.+.+-.|
T Consensus        94 ~~~~p~~if~~L~~~~IG~~-----~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           94 NFHESENTFKYMFNKGIGTK-----LSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             CHHHHHHHHHHHHHHTSSTT-----BHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             ccCCHHHHHHHHHHCCCcHH-----HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            35566667776666665544     34566666666667777777777777666665555

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=88.09  E-value=2.4  Score=30.85  Aligned_cols=55  Identities=20%  Similarity=0.236  Sum_probs=35.7

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          136 GLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      ...+.|++++++.....-.+... -|...-..+++.+|-.|++++|.+-++...+.
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P-~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            34566777777777666666542 25556666777777777777777766666544

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=87.68  E-value=11  Score=31.29  Aligned_cols=112  Identities=13%  Similarity=0.067  Sum_probs=65.8

Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHH----HHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 036731          142 KLKNARELSQSLTRAGLMPNVVTYNIT----IHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVI  217 (259)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~l----i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  217 (259)
                      +.+.|...+....+... .+......+    .......+...++...+......  .++.......+....+.|+++.|.
T Consensus       229 d~~~A~~~~~~~~~~~~-~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~~~r~Alr~~d~~~a~  305 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR--SQSTSLIERRVRMALGTGDRRGLN  305 (618)
T ss_dssp             CHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT--CCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CHHHHHHHHHhhhhccC-CCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc--CCChHHHHHHHHHHHHCCCHHHHH
Confidence            77888888888765432 233322222    22222334245566666665443  234444445555556778888888


Q ss_pred             HHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          218 ELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      +.|..|..... ........+..++...|+.++|..+|.+
T Consensus       306 ~~~~~l~~~~~-~~~r~~YW~~ra~~~~g~~~~a~~~~~~  344 (618)
T 1qsa_A          306 TWLARLPMEAK-EKDEWRYWQADLLLERGREAEAKEILHQ  344 (618)
T ss_dssp             HHHHHSCTTGG-GSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHcccccc-ccHhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888765322 2344445566777788888888777654

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=87.28  E-value=5  Score=28.82  Aligned_cols=19  Identities=16%  Similarity=0.205  Sum_probs=10.5

Q ss_pred             HHHHHHHhcCChHHHHHHH
Q 036731           21 TIIDGLCKEGFVDKAKELF   39 (259)
Q Consensus        21 ~ll~~~~~~~~~~~a~~~~   39 (259)
                      +.+...++.|+++.+..++
T Consensus         7 ~~L~~A~~~g~~~~v~~Ll   25 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQLL   25 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHH
Confidence            3455556667765554444

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=86.95  E-value=4.3  Score=25.89  Aligned_cols=68  Identities=9%  Similarity=0.086  Sum_probs=38.0

Q ss_pred             CCchHhHHHHHHHHhhcCC---hhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 036731           48 NPNVVTYNSLIHGFCYAND---GNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        48 ~~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  115 (259)
                      .|+..+--.+.-++.+..+   ...++.+++++.+.+..-....+-.|.-++.+.|++++|.+..+.+.+.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            3444443334444444443   3456677777666542222344445666677777777777777777664

>3eiq_C Programmed cell death protein 4; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Mus musculus}

Probab=85.74  E-value=10  Score=28.98  Aligned_cols=59  Identities=10%  Similarity=0.082  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCCh--hHHHHHHHHHH
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDG--NEAEYLFIEMM   78 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~--~~a~~~~~~~~   78 (259)
                      ....+|.-|...++.++|...++++.....  .......++......++.  +.+-.++..+.
T Consensus        56 ~~~~ii~EYf~~~d~~Ea~~~l~eL~~p~~--~~~~v~~~I~~aLdr~~~erE~~s~LLs~L~  116 (358)
T 3eiq_C           56 TLTPIIQEYFEHGDTNEVAEMLRDLNLGEM--KSGVPVLAVSLALEGKASHREMTSKLLSDLC  116 (358)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHTTTCCGG--GGGHHHHHHHHHTTSCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHhCCchh--HHHHHHHHHHHHhcCChHHHHHHHHHHHHHH
Confidence            355778889999999999999998753221  233344445444433332  23555555555

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis}

Probab=84.78  E-value=3.5  Score=27.93  Aligned_cols=82  Identities=11%  Similarity=0.024  Sum_probs=37.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhh--HHHHHHHHHHcC
Q 036731           23 IDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVT--FNVIMDELCKNR  100 (259)
Q Consensus        23 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~  100 (259)
                      +...+..|+.+.+..++..-...--..+..-++. +...+..|+.+-    ++.+.+.|..++...  -.+.+...+..|
T Consensus         9 L~~A~~~g~~~~v~~ll~~~~~~~~~~~~~g~t~-L~~A~~~~~~~~----v~~Ll~~g~~~~~~~~~g~t~l~~A~~~~   83 (201)
T 3hra_A            9 LLEAANQRDTKKVKEILQDTTYQVDEVDTEGNTP-LNIAVHNNDIEI----AKALIDRGADINLQNSISDSPYLYAGAQG   83 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHTCTTCCTTCCCTTSCCH-HHHHHHHTCHHH----HHHHHHTTCCTTCCCTTSCCHHHHHHHTT
T ss_pred             HHHHHHhccHHHHHHHHHcCCCCCCCCCCCCCCH-HHHHHHcCCHHH----HHHHHHcCCCCCCCCCCCCCHHHHHHHcC
Confidence            3444567777777666643321100112222233 333445566544    444445565544321  122344445567


Q ss_pred             CHHHHHHHH
Q 036731          101 KMDEATRLL  109 (259)
Q Consensus       101 ~~~~a~~~~  109 (259)
                      +.+-+..++
T Consensus        84 ~~~~~~~Ll   92 (201)
T 3hra_A           84 RTEILAYML   92 (201)
T ss_dssp             CHHHHHHHH
T ss_pred             CHHHHHHHH
Confidence            665554444

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=84.61  E-value=11  Score=28.24  Aligned_cols=124  Identities=9%  Similarity=-0.001  Sum_probs=74.1

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhC-----CCCCchHhHHHHHHHHhhcCChhHHHHH----HHHHHHcCCCCchhhHHHHH
Q 036731           23 IDGLCKEGFVDKAKELFLQMKDE-----NINPNVVTYNSLIHGFCYANDGNEAEYL----FIEMMDRGLQSDVVTFNVIM   93 (259)
Q Consensus        23 l~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~l~   93 (259)
                      +......|++-+|.+.++....+     ...--......-...+.+.|+...|-++    .+-+.+.+.+++......++
T Consensus        20 l~~~I~~G~yYEAhQ~~Rtl~~Ry~~~~~~~eAidlL~~ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~   99 (312)
T 2wpv_A           20 FENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQGALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLV   99 (312)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHH
T ss_pred             HHHHhhccChHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            45556678888888777665432     1111111222223344567777665554    45555678888888888888


Q ss_pred             HHHHHcCCHH-HHHHHHHHHH----hCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHH
Q 036731           94 DELCKNRKMD-EATRLLDLMI----QGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELS  150 (259)
Q Consensus        94 ~~~~~~~~~~-~a~~~~~~~~----~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  150 (259)
                      ..+.....-+ .-.++++++.    +.|-.+..    ++.....+...|.+.|++.+|...|
T Consensus       100 ~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~G----dp~LH~~~a~~~~~e~~~~~A~~H~  157 (312)
T 2wpv_A          100 RLIAELDPSEPNLKDVITGMNNWSIKFSEYKFG----DPYLHNTIGSKLLEGDFVYEAERYF  157 (312)
T ss_dssp             HHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTC----CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCC----CHHHHHHHHHHHhhcCCHHHHHHHH
Confidence            8776643211 1223333333    33332322    6688999999999999999988866

>2zu6_B Programmed cell death protein 4; protein-protein complex, ATP-binding, helicase, hydrolase, initiation factor, nucleotide-binding; 2.80A {Homo sapiens} PDB: 3eij_A

Probab=82.77  E-value=13  Score=27.75  Aligned_cols=58  Identities=9%  Similarity=0.041  Sum_probs=34.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCCh--hHHHHHHHHHH
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDG--NEAEYLFIEMM   78 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~--~~a~~~~~~~~   78 (259)
                      ...+|.-|...|+.++|...++++....  ........++......++.  +.+-.++..+.
T Consensus         6 ~~~ii~EYf~~~d~~Ea~~~l~el~~p~--~~~~~v~~~i~~aldr~~~erE~~s~LLs~L~   65 (307)
T 2zu6_B            6 LTPIIQEYFEHGDTNEVAEMLRDLNLGE--MKSGVPVLAVSLALEGKASHREMTSKLLSDLC   65 (307)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHTTCCGG--GGGGHHHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCCcc--hHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence            4578889999999999999998875332  1222333444444444332  23555555554

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=81.02  E-value=9.4  Score=25.03  Aligned_cols=50  Identities=12%  Similarity=0.054  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 036731          146 ARELSQSLTRAGLMPN-VVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAP  195 (259)
Q Consensus       146 a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  195 (259)
                      +..+|..|...|+-.. ...|......+...|++.+|..+|+.-.+.+..|
T Consensus        84 p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P  134 (152)
T 4a1g_A           84 LHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQAEP  134 (152)
T ss_dssp             HHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            4555555555443322 2344444555555555555555555555554444

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=80.42  E-value=7.3  Score=23.44  Aligned_cols=80  Identities=8%  Similarity=-0.158  Sum_probs=55.5

Q ss_pred             CChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHH
Q 036731           30 GFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLL  109 (259)
Q Consensus        30 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  109 (259)
                      ..-++|..+-+.+...+.  ...+--+-+..+...|++++|..+.+.+    ..||...|..|.  -.+.|..+++...+
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALc--e~rlGl~s~le~rL   91 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGN----PWPALEPWFALC--EWHLGLGAALDRRL   91 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTC----CCGGGHHHHHHH--HHHTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHH--HHhcccHHHHHHHH
Confidence            346788888888877643  2222223345677899999998876533    378888886654  45788888888888


Q ss_pred             HHHHhCCC
Q 036731          110 DLMIQGGV  117 (259)
Q Consensus       110 ~~~~~~~~  117 (259)
                      .++...|.
T Consensus        92 ~~la~sg~   99 (115)
T 2uwj_G           92 AGLGGSSD   99 (115)
T ss_dssp             HHHHTCSS
T ss_pred             HHHHhCCC
Confidence            78877653

>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*

Probab=80.39  E-value=9.4  Score=24.67  Aligned_cols=61  Identities=3%  Similarity=0.069  Sum_probs=37.1

Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhccc
Q 036731          187 DMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEIS  248 (259)
Q Consensus       187 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  248 (259)
                      .+.+.|++++..=. .++..+...+..-.|.++++.+.+.+...+..|....++.+...|-.
T Consensus        12 ~l~~~g~r~T~qR~-~Il~~L~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv   72 (145)
T 2fe3_A           12 TLKETGVRITPQRH-AILEYLVNSMAHPTADDIYKALEGKFPNMSVATVYNNLRVFRESGLV   72 (145)
T ss_dssp             HHHHTTCCCCHHHH-HHHHHHHHCSSCCCHHHHHHHHGGGCTTCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHHcCCCCCHHHH-HHHHHHHhCCCCCCHHHHHHHHHHhCCCCChhhHHHHHHHHHHCCCE
Confidence            34556666654433 33444444555566777777777666556666777777777777655

---

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	259
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.8
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.77
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.77
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.66
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.53
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.49
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.41
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.36
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.33
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.31
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.23
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.16
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.1
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.09
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.05
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.0
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.96
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.86
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.85
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.83
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.82
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.81
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.81
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.81
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.8
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.64
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.63
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.56
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.55
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.48
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.48
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.48
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.43
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.39
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.36
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.32
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.31
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.28
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.28
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.25
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.23
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.03
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.99
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.99
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.91
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.89
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.88
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.84
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.81
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.77
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.74
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.6
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.45
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.18
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.97
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	96.9
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.58
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.43
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	95.12
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	94.09
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.26
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	90.11
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	85.83
d1mzba_	134	Ferric uptake regulation protein, FUR {Pseudomonas	81.05

>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=99.80  E-value=6.3e-17  Score=123.64  Aligned_cols=237  Identities=11%  Similarity=0.014  Sum_probs=154.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCc---------
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSD---------   85 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---------   85 (259)
                      ++.++..+...+.+.|++++|...|++..+.. +-+..+|..+..++...|++++|+..+....+......         
T Consensus        32 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  110 (388)
T d1w3ba_          32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAA  110 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccccccccccccccccccccccccccccc
Confidence            57788888888999999999999999887763 33567888888899999999999999988887654210         


Q ss_pred             ----------------------------------------------------------hhhHHHHHHHHHHcCCHHHHHH
Q 036731           86 ----------------------------------------------------------VVTFNVIMDELCKNRKMDEATR  107 (259)
Q Consensus        86 ----------------------------------------------------------~~~~~~l~~~~~~~~~~~~a~~  107 (259)
                                                                                ...+..+...+...|++++|..
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  190 (388)
T d1w3ba_         111 LVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIH  190 (388)
T ss_dssp             HHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHHH
Confidence                                                                      1223333444555566666666


Q ss_pred             HHHHHHhCCCCCCCc-----------------------------cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 036731          108 LLDLMIQGGVRPDAF-----------------------------CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGL  158 (259)
Q Consensus       108 ~~~~~~~~~~~~~~~-----------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  158 (259)
                      .+++..+.  .|+..                             ...+...+..+...+.+.|++++|...|++..+...
T Consensus       191 ~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p  268 (388)
T d1w3ba_         191 HFEKAVTL--DPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP  268 (388)
T ss_dssp             HHHHHHHH--CTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS
T ss_pred             HHHHHHHh--CcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            66655543  22210                             111234445555555566666666666666555432


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHH
Q 036731          159 MPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSII  238 (259)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  238 (259)
                       -+..++..+...+...|++++|...++...... +.+...+..+...+...|++++|.+.+++..+.. +-+..++..+
T Consensus       269 -~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l  345 (388)
T d1w3ba_         269 -HFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNL  345 (388)
T ss_dssp             -SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHH
T ss_pred             -CCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence             134455666666666666666666666655542 4455666677777777788888888887777653 2245667777


Q ss_pred             HHHHHHhcccCCcchhhhc
Q 036731          239 VDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       239 ~~~~~~~g~~~~a~~~~~~  257 (259)
                      ..+|.+.|++++|++.|++
T Consensus       346 a~~~~~~g~~~~A~~~~~~  364 (388)
T d1w3ba_         346 ASVLQQQGKLQEALMHYKE  364 (388)
T ss_dssp             HHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHH
Confidence            7888888888888777764

>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=99.77  E-value=1.9e-15  Score=115.35  Aligned_cols=221  Identities=12%  Similarity=0.037  Sum_probs=189.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      +...+..+...+...|++++|...+++..+.. +-+...+..+...+...|++++|...++.....+. .+...+..+..
T Consensus       168 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~  245 (388)
T d1w3ba_         168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLAC  245 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHH
Confidence            56778888899999999999999999988763 33567888999999999999999999999988753 36677888999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      .+.+.|++++|...|++..+..  |+     +..++..+..++...|++++|...++...... +.+...+..+...+..
T Consensus       246 ~~~~~~~~~~A~~~~~~al~~~--p~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  317 (388)
T d1w3ba_         246 VYYEQGLIDLAIDTYRRAIELQ--PH-----FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTC--SS-----CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC--CC-----CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHH
Confidence            9999999999999999998753  43     45889999999999999999999999988764 4467788889999999


Q ss_pred             cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcc
Q 036731          175 DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEI  247 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  247 (259)
                      .|++++|...+++..+.. +-+..++..+...+.+.|++++|.+.+++.++.. +-+...+..+..+|.+.||
T Consensus       318 ~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         318 QGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            999999999999998762 3356788899999999999999999999998764 2257788999999988775

>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=99.77  E-value=2.6e-16  Score=117.95  Aligned_cols=233  Identities=10%  Similarity=-0.008  Sum_probs=179.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcC
Q 036731           21 TIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNR  100 (259)
Q Consensus        21 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  100 (259)
                      .....+.+.|++++|...|+++.+.. +-+..+|..+..++...|++++|...+.+..+.... +...+..+..+|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccc
Confidence            46677889999999999999999873 346788999999999999999999999999887433 6778888999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCc--------cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCChhhHHHHHHH
Q 036731          101 KMDEATRLLDLMIQGGVRPDAF--------CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGL-MPNVVTYNITIHA  171 (259)
Q Consensus       101 ~~~~a~~~~~~~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~  171 (259)
                      ++++|.+.+++...........        ...+.......+..+...+.+.+|...+.+..+... .++..++..+...
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~  181 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVL  181 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHH
Confidence            9999999999987643221100        000111122233344555677888888888766432 2345677788888


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCc
Q 036731          172 LCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNS  251 (259)
Q Consensus       172 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  251 (259)
                      +...|++++|...+++..... +-+...|..+...+...|++++|.+.+++.++.. +-+...+..+..+|.+.|++++|
T Consensus       182 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A  259 (323)
T d1fcha_         182 FNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREA  259 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHH
Confidence            999999999999999988763 3357788889999999999999999999988753 23567788899999999999999


Q ss_pred             chhhhc
Q 036731          252 IPQFNR  257 (259)
Q Consensus       252 ~~~~~~  257 (259)
                      ++.|++
T Consensus       260 ~~~~~~  265 (323)
T d1fcha_         260 VEHFLE  265 (323)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998865

>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=99.66  E-value=1.3e-13  Score=102.91  Aligned_cols=242  Identities=12%  Similarity=-0.040  Sum_probs=181.4

Q ss_pred             CCccccccccc--C-CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHH
Q 036731            3 NGNREFGVVCK--P-NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMD   79 (259)
Q Consensus         3 ~a~~~~~~~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~   79 (259)
                      +|.+.|+..++  | ++.+|..+..++...|++++|...|.+..+.. +-+...+..+...+...|++++|.+.++....
T Consensus        37 ~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  115 (323)
T d1fcha_          37 NAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLR  115 (323)
T ss_dssp             HHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccccccccchhhHHH
Confidence            45555655543  3 57889999999999999999999999998763 34677888899999999999999999999876


Q ss_pred             cCCCCc--------------hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHH
Q 036731           80 RGLQSD--------------VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKN  145 (259)
Q Consensus        80 ~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  145 (259)
                      ......              .......+..+...+.+.+|...+.+..+.....     .+..++..+...+...|++++
T Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~-----~~~~~~~~l~~~~~~~~~~~~  190 (323)
T d1fcha_         116 YTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTS-----IDPDVQCGLGVLFNLSGEYDK  190 (323)
T ss_dssp             TSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTS-----CCHHHHHHHHHHHHHTTCHHH
T ss_pred             hccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcc-----cccccchhhHHHHHHHHHHhh
Confidence            532110              0011112233445567788888888877643222     145788899999999999999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          146 ARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       146 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      |...+++....... +...|..+..++...|++++|.+.+++..+.. +-+..++..+..+|.+.|++++|.+.|++.++
T Consensus       191 A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         191 AVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999998876432 57788899999999999999999999998763 33567899999999999999999999998775


Q ss_pred             C----------CCccchHHHHHHHHHHHHhcccCCcc
Q 036731          226 R----------NVMPYASILSIIVDLLVKNEISLNSI  252 (259)
Q Consensus       226 ~----------~~~~~~~~~~~l~~~~~~~g~~~~a~  252 (259)
                      .          ........+..+-.++...|+.+.+.
T Consensus       269 l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         269 MQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             hCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            2          11122345666667777777765443

>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=99.53  E-value=6.6e-12  Score=93.23  Aligned_cols=227  Identities=12%  Similarity=0.049  Sum_probs=174.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcC-ChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN-DGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      ...|+.+...+.+.+.+++|+++++++.+.. +-+...|+....++...| ++++|+..++...+.... +..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhH
Confidence            5677888888999999999999999999874 346678888888888776 589999999999887544 7889999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      ++.+.|++++|+..+.++.+.  .|+     +..+|..+...+...|++++|+..++.+.+.+.. +...|+.+...+.+
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~--dp~-----n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~  192 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQ--DAK-----NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISN  192 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHH--CTT-----CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHhhhhhh--hhc-----chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHH
Confidence            999999999999999999885  343     5689999999999999999999999999997543 66778777766666


Q ss_pred             cCC------hhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCcc-chHHHHHHHHHHHHh--
Q 036731          175 DEQ------MDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP-YASILSIIVDLLVKN--  245 (259)
Q Consensus       175 ~~~------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~--  245 (259)
                      .+.      +++|...+....+.. +-+...|..+...+.. ...+++.+.++...+....+ +...+..+...|...  
T Consensus       193 ~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~  270 (315)
T d2h6fa1         193 TTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLE  270 (315)
T ss_dssp             TTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHH
T ss_pred             ccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHh
Confidence            555      568888888887763 3356677776665544 44677778887776543332 345566677776554  


Q ss_pred             cccCCcchh
Q 036731          246 EISLNSIPQ  254 (259)
Q Consensus       246 g~~~~a~~~  254 (259)
                      +..+.+...
T Consensus       271 ~~~~~~~~~  279 (315)
T d2h6fa1         271 NQCDNKEDI  279 (315)
T ss_dssp             TTCSSHHHH
T ss_pred             cCHHHHHHH
Confidence            344444443

>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=99.49  E-value=9.7e-12  Score=92.10  Aligned_cols=216  Identities=9%  Similarity=-0.004  Sum_probs=123.4

Q ss_pred             HHHHHHHHHHhhCCCCCchHhHHHHHHHHhh--------------cCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH
Q 036731           33 DKAKELFLQMKDENINPNVVTYNSLIHGFCY--------------ANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK   98 (259)
Q Consensus        33 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~--------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   98 (259)
                      +++..+|+++... .+.+...|...+..+..              .+..++|..+|++..+...+.+...|...+....+
T Consensus        33 ~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~  111 (308)
T d2onda1          33 KRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            4455566666554 23344444444433221              12345666667666654334445566666666677


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHH-HHhcCC
Q 036731           99 NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHA-LCNDEQ  177 (259)
Q Consensus        99 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~  177 (259)
                      .|+.+.|..+|+++.+.....      ...+|...+..+.+.|+.+.|..+|+...+.+.. +...|...... +...|+
T Consensus       112 ~~~~~~a~~i~~~~l~~~~~~------~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~  184 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIEDID------PTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKD  184 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSC------THHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCC
T ss_pred             cccHHHHHHHHHHHHHHhcCC------hHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccC
Confidence            777777777777766532211      2245667777777777777777777776655322 33333333322 233466


Q ss_pred             hhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC-Ccc--chHHHHHHHHHHHHhcccCCcchh
Q 036731          178 MDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN-VMP--YASILSIIVDLLVKNEISLNSIPQ  254 (259)
Q Consensus       178 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~a~~~  254 (259)
                      .+.|..+|+.+... .+.+...|...+..+.+.|+++.|..+|++..+.. ..|  ....|...+..-...|+.+.+.++
T Consensus       185 ~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~  263 (308)
T d2onda1         185 KSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKV  263 (308)
T ss_dssp             HHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            67777777776665 23345666677777777777777777777766543 222  234566666666666776666666


Q ss_pred             hhc
Q 036731          255 FNR  257 (259)
Q Consensus       255 ~~~  257 (259)
                      +++
T Consensus       264 ~~r  266 (308)
T d2onda1         264 EKR  266 (308)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            554

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.41  E-value=2.1e-10  Score=84.81  Aligned_cols=187  Identities=8%  Similarity=0.008  Sum_probs=150.1

Q ss_pred             ChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHH
Q 036731           31 FVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLD  110 (259)
Q Consensus        31 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  110 (259)
                      ..++|..+|++..+...+.+...|...+....+.|+++.|..+|+.+.+.........|...+..+.+.|+.+.|.++|+
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            35788899999887644556677888889999999999999999999876444345578999999999999999999999


Q ss_pred             HHHhCCCCCCCccchhHHHHHHHHHH-HHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 036731          111 LMIQGGVRPDAFCEINIVAYGCLIDG-LCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDME  189 (259)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  189 (259)
                      +..+....       +...|...... +...|+.+.|..+|+.+.+.. +.+...|...+..+...|+.+.|..+|++..
T Consensus       159 ~al~~~~~-------~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai  230 (308)
T d2onda1         159 KAREDART-------RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVL  230 (308)
T ss_dssp             HHHTSTTC-------CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHhCCC-------cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            99876433       22455544443 345689999999999998863 3367789999999999999999999999988


Q ss_pred             hcC-CCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 036731          190 VKG-VAPN--CVIFTTLMPSFIRKNETSKVIELLRSMDK  225 (259)
Q Consensus       190 ~~~-~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  225 (259)
                      ... ..|+  ...|...+..-...|+.+.+.++.+++.+
T Consensus       231 ~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         231 TSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            763 3433  45788888888899999999999998765

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.36  E-value=2.1e-10  Score=84.94  Aligned_cols=194  Identities=9%  Similarity=0.005  Sum_probs=153.5

Q ss_pred             hHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcC-CHHHHHHHHHHHHhCCCCCCCccchhHHH
Q 036731           51 VVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNR-KMDEATRLLDLMIQGGVRPDAFCEINIVA  129 (259)
Q Consensus        51 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  129 (259)
                      ...++.+...+.+.+.+++|+++++++.+.... +...|+....++...| ++++|+..++...+..  |+     +..+
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~--p~-----~~~a  114 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ--PK-----NYQV  114 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--TT-----CHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH--Hh-----hhhH
Confidence            445666777788899999999999999998433 6778888888888876 5899999999998754  33     5689


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 036731          130 YGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR  209 (259)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  209 (259)
                      |..+...+.+.|++++|+..++++.+.... +...|..+...+...|++++|+..++++.+.+ +-+...|+.+...+.+
T Consensus       115 ~~~~~~~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~  192 (315)
T d2h6fa1         115 WHHRRVLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISN  192 (315)
T ss_dssp             HHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHH
Confidence            999999999999999999999999987543 78899999999999999999999999999874 3356778777766666


Q ss_pred             cCC------HHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhh
Q 036731          210 KNE------TSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFN  256 (259)
Q Consensus       210 ~~~------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  256 (259)
                      .+.      +++|.+.+...++.. +.+...|..+...+...| .+++.+.++
T Consensus       193 ~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~~~-~~~~~~~~~  243 (315)
T d2h6fa1         193 TTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRG-LSKYPNLLN  243 (315)
T ss_dssp             TTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTC-GGGCHHHHH
T ss_pred             ccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHhcC-hHHHHHHHH
Confidence            555      678888898888764 235666666665554443 456665554

>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=99.33  E-value=2.4e-10  Score=82.09  Aligned_cols=199  Identities=13%  Similarity=-0.036  Sum_probs=136.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMD   94 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   94 (259)
                      ...+|..+...|.+.|++++|...|++..+.. +-+..+|+.+..++.+.|++++|+..|++..+.... +..++..+..
T Consensus        36 ~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~  113 (259)
T d1xnfa_          36 RAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGI  113 (259)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHH
Confidence            34577778889999999999999999998763 446788999999999999999999999999987433 5667888999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 036731           95 ELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN  174 (259)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  174 (259)
                      ++...|++++|...|+...+..  |.     +......+..++.+.+..+.+..+........  ++...+. ++..+..
T Consensus       114 ~~~~~g~~~~A~~~~~~al~~~--p~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~  183 (259)
T d1xnfa_         114 ALYYGGRDKLAQDDLLAFYQDD--PN-----DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYLG  183 (259)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHTT
T ss_pred             HHHHHhhHHHHHHHHHHHHhhc--cc-----cHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHHH
Confidence            9999999999999999988753  33     23444444455566666666666655555542  2222222 2222222


Q ss_pred             cCC----hhHHHHHHHHHHhcCCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          175 DEQ----MDKAHDLFLDMEVKGVAP-NCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       175 ~~~----~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      ...    .+.+...+......  .| ...+|..+...+...|++++|.+.|+..+..+
T Consensus       184 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         184 NISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             SSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            111    11221111111111  12 23467778889999999999999999998764

>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=99.31  E-value=5.3e-11  Score=85.62  Aligned_cols=214  Identities=10%  Similarity=-0.061  Sum_probs=142.5

Q ss_pred             hHHHHHHHHHHhhCCC-CC--chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHH
Q 036731           32 VDKAKELFLQMKDENI-NP--NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRL  108 (259)
Q Consensus        32 ~~~a~~~~~~~~~~~~-~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  108 (259)
                      .+.++.-+++...... .+  ...+|..+..+|.+.|++++|...|++..+... -+..+|..+..++...|++++|+..
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p-~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCC-CCHHHHhhhchHHHHHHHHHHhhhh
Confidence            4456666666665421 11  234677788899999999999999999998743 3688899999999999999999999


Q ss_pred             HHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 036731          109 LDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDM  188 (259)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  188 (259)
                      |++..+..  |+     +..++..+..++...|++++|...|+...+... .+......+..++.+.+..+.+..+....
T Consensus        94 ~~~al~~~--p~-----~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (259)
T d1xnfa_          94 FDSVLELD--PT-----YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHF  165 (259)
T ss_dssp             HHHHHHHC--TT-----CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             hhHHHHHH--hh-----hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHh
Confidence            99998853  43     347899999999999999999999999988642 24444444444555666655555555555


Q ss_pred             HhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC--CCcc-chHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          189 EVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR--NVMP-YASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       189 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ....  ++...+. ++..+...................  ...| ...++..+...|...|++++|++.|++
T Consensus       166 ~~~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~  234 (259)
T d1xnfa_         166 EKSD--KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKL  234 (259)
T ss_dssp             HHSC--CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hccc--hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5442  2222222 223332222222222221111111  0112 234677789999999999999999875

>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=2.2e-09  Score=80.22  Aligned_cols=239  Identities=12%  Similarity=-0.019  Sum_probs=171.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhC----CCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHc----CCC--Cc
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDE----NINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDR----GLQ--SD   85 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~--~~   85 (259)
                      .+++.+...+...|++++|...|++..+.    +..+ ....+..+...+...|++..+...+......    +..  +.
T Consensus        52 ~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~  131 (366)
T d1hz4a_          52 VATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPM  131 (366)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhH
Confidence            46777888999999999999999988653    1111 1344566677888999999999988876532    111  11


Q ss_pred             -hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCC--
Q 036731           86 -VVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG--LMP--  160 (259)
Q Consensus        86 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--  160 (259)
                       ...+..+...+...|+++.+...+............  ......+......+...++...+...+.+.....  ...  
T Consensus       132 ~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~  209 (366)
T d1hz4a_         132 HEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQP--QQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHS  209 (366)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCG--GGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCH
T ss_pred             HHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhh--hhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccC
Confidence             234556778888999999999999888764332221  2244666777788889999999998888765421  111  


Q ss_pred             --ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCC---CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhh----CCCcc-
Q 036731          161 --NVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVA---PNCVIFTTLMPSFIRKNETSKVIELLRSMDK----RNVMP-  230 (259)
Q Consensus       161 --~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-  230 (259)
                        ....+......+...|+++.|...++........   .....+..+...+...|++++|...+++...    .+..| 
T Consensus       210 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  289 (366)
T d1hz4a_         210 DWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSD  289 (366)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             chHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChH
Confidence              1224555667788899999999999887654222   2234566678899999999999999998763    34444 


Q ss_pred             chHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          231 YASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       231 ~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ....+..+..+|...|++++|++.|++
T Consensus       290 ~~~~~~~la~~~~~~g~~~~A~~~l~~  316 (366)
T d1hz4a_         290 LNRNLLLLNQLYWQAGRKSDAQRVLLD  316 (366)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            345778888999999999999998864

>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=99.16  E-value=1.9e-08  Score=74.96  Aligned_cols=236  Identities=10%  Similarity=-0.031  Sum_probs=167.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCc-----hHhHHHHHHHHhhcCChhHHHHHHHHHHHcC----CCC-chh
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPN-----VVTYNSLIHGFCYANDGNEAEYLFIEMMDRG----LQS-DVV   87 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~   87 (259)
                      ........+...|++++|++++++..+.. +.+     ...+..+...+...|++++|...+++..+..    ..+ ...
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~-~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   92 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALW   92 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC-cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHH
Confidence            34444566789999999999999988752 222     2456777889999999999999999886532    111 134


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC----C
Q 036731           88 TFNVIMDELCKNRKMDEATRLLDLMIQG----GVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGL----M  159 (259)
Q Consensus        88 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~  159 (259)
                      .+..+...+...|++..+...+.+....    .....   ......+..+...+...|+++.+...+........    .
T Consensus        93 ~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~---~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  169 (366)
T d1hz4a_          93 SLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQL---PMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQ  169 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTS---THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchh---hHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhh
Confidence            5566778888999999999988876532    11111   11334666778889999999999999998876422    2


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHhc----CCCC--cHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC---cc
Q 036731          160 PNVVTYNITIHALCNDEQMDKAHDLFLDMEVK----GVAP--NCVIFTTLMPSFIRKNETSKVIELLRSMDKRNV---MP  230 (259)
Q Consensus       160 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~  230 (259)
                      .....+......+...++...+...+......    +..+  ....+..+...+...|++++|...+.+..+...   ..
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  249 (366)
T d1hz4a_         170 QQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHF  249 (366)
T ss_dssp             GGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGG
T ss_pred             hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchH
Confidence            23345556667778889999988888776542    1111  123455666778899999999999998765432   22


Q ss_pred             chHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          231 YASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       231 ~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ....+..+..++...|++++|...+++
T Consensus       250 ~~~~~~~la~~~~~~g~~~~A~~~~~~  276 (366)
T d1hz4a_         250 LQGQWRNIARAQILLGEFEPAEIVLEE  276 (366)
T ss_dssp             GHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            345566788899999999999988765

>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=99.10  E-value=5e-09  Score=76.55  Aligned_cols=204  Identities=11%  Similarity=-0.012  Sum_probs=138.5

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHc----CCCC-chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHH
Q 036731           54 YNSLIHGFCYANDGNEAEYLFIEMMDR----GLQS-DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIV  128 (259)
Q Consensus        54 ~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  128 (259)
                      |......|...+++++|.+.|.+..+.    +-++ -..+|..+..+|.+.|++++|...+++..+....... ......
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~-~~~~~~  118 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQ-FRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC-HHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhccc-chhHHH
Confidence            444567788999999999999988653    2122 2457888999999999999999999876543211111 112346


Q ss_pred             HHHHHHHHHHh-cCChHHHHHHHHHHHHc----CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCC-----CcH
Q 036731          129 AYGCLIDGLCK-IGKLKNARELSQSLTRA----GLMP-NVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVA-----PNC  197 (259)
Q Consensus       129 ~~~~l~~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-----p~~  197 (259)
                      ++..+...|.. .|++++|...+++..+.    +..+ ...++..+...+...|++++|...++++......     .+.
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~  198 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhH
Confidence            67777777754 69999999999987542    2111 1345788899999999999999999998765211     111


Q ss_pred             -HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc-cc---hHHHHHHHHHHHHh--cccCCcchhhhcc
Q 036731          198 -VIFTTLMPSFIRKNETSKVIELLRSMDKRNVM-PY---ASILSIIVDLLVKN--EISLNSIPQFNRQ  258 (259)
Q Consensus       198 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~~--g~~~~a~~~~~~~  258 (259)
                       ..+...+..+...|+++.|.+.+++..+.... ++   ......++.++...  +.+++|+..|+++
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence             22344555677889999999999998876422 11   23556677776552  3467777777653

>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=99.09  E-value=2e-08  Score=73.28  Aligned_cols=210  Identities=9%  Similarity=-0.011  Sum_probs=144.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhC----CCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHc----C-CCCc
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDE----NINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDR----G-LQSD   85 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~-~~~~   85 (259)
                      ...|......|...|++++|.+.|.+..+.    +-++ -..+|..+..+|.+.|++++|...++...+.    | ....
T Consensus        37 a~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  116 (290)
T d1qqea_          37 ADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRG  116 (290)
T ss_dssp             HHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhH
Confidence            346888889999999999999999988653    2122 2457888999999999999999999977643    1 1112


Q ss_pred             hhhHHHHHHHHHH-cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh--
Q 036731           86 VVTFNVIMDELCK-NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNV--  162 (259)
Q Consensus        86 ~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--  162 (259)
                      ..++..+...|.. .|++++|+..+.+..+.....+. ......++..+...+...|++++|...|++..........  
T Consensus       117 ~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~-~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~  195 (290)
T d1qqea_         117 ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQS-VALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQ  195 (290)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTG
T ss_pred             HHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCc-hhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhh
Confidence            4456667777755 69999999999887542111000 0113467888999999999999999999998875322111  


Q ss_pred             ----hhHHHHHHHHHhcCChhHHHHHHHHHHhcCCC-Cc---HHHHHHHHHHHHh--cCCHHHHHHHHHHHhhC
Q 036731          163 ----VTYNITIHALCNDEQMDKAHDLFLDMEVKGVA-PN---CVIFTTLMPSFIR--KNETSKVIELLRSMDKR  226 (259)
Q Consensus       163 ----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~---~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~  226 (259)
                          ..+...+..+...|+++.|...+++..+.... ++   ......++.++..  .+.+++|...|+++.+.
T Consensus       196 ~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~l  269 (290)
T d1qqea_         196 WSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRL  269 (290)
T ss_dssp             GGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCC
T ss_pred             hhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhc
Confidence                12344555677889999999999998765211 11   2344566666655  34578888888765543

>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=99.05  E-value=5e-08  Score=66.47  Aligned_cols=137  Identities=15%  Similarity=-0.015  Sum_probs=106.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELC   97 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   97 (259)
                      .|+. ...+...|+++.|++.|+++    .+|+..+|..+..+|...|++++|++.|++..+.... +...|..+..+|.
T Consensus         8 l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~   81 (192)
T d1hh8a_           8 LWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYY   81 (192)
T ss_dssp             HHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHH
Confidence            4553 56678899999999999865    2567888999999999999999999999999987533 6788999999999


Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCCc---------cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 036731           98 KNRKMDEATRLLDLMIQGGVRPDAF---------CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMP  160 (259)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  160 (259)
                      +.|++++|...|++...........         ......++..+..++.+.|++++|.+.++...+....+
T Consensus        82 ~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          82 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             hhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            9999999999999987542111000         01123566778888999999999999998877764443

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.00  E-value=7.2e-10  Score=82.77  Aligned_cols=202  Identities=7%  Similarity=-0.001  Sum_probs=133.7

Q ss_pred             cCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcC--ChhHHHHHHHHHHHcCCCCchhhHH-HHHHHHHHcCCHHHH
Q 036731           29 EGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAN--DGNEAEYLFIEMMDRGLQSDVVTFN-VIMDELCKNRKMDEA  105 (259)
Q Consensus        29 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a  105 (259)
                      .|++++|+.+++...+.. +-+...|..+..++...+  ++++|...++.+.+.... +...+. .....+...+.+++|
T Consensus        86 ~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          86 AALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHH
Confidence            445788999999988763 446667777766666655  578999999999887433 455544 455677778999999


Q ss_pred             HHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHH------------------------------HHHHH
Q 036731          106 TRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELS------------------------------QSLTR  155 (259)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~------------------------------~~~~~  155 (259)
                      +..++...+.+  |+     +...|+.+..++.+.|++++|...+                              .....
T Consensus       164 l~~~~~~i~~~--p~-----~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~  236 (334)
T d1dcea1         164 LAFTDSLITRN--FS-----NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLL  236 (334)
T ss_dssp             HHHHHTTTTTT--CC-----CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHcC--CC-----CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            99998887653  33     5678888888888887765443222                              22222


Q ss_pred             cCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCcc-chHH
Q 036731          156 AGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMP-YASI  234 (259)
Q Consensus       156 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~  234 (259)
                      .. +++...+..+...+...++.++|...+.+..... +-+..++..+...+...|++++|.+.+++..+.  .| ...-
T Consensus       237 ~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y  312 (334)
T d1dcea1         237 GR-AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAY  312 (334)
T ss_dssp             SC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHH
T ss_pred             hC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHH
Confidence            11 1223334445555666677778887777776552 224466777778888888888888888888775  34 3445


Q ss_pred             HHHHHHHHH
Q 036731          235 LSIIVDLLV  243 (259)
Q Consensus       235 ~~~l~~~~~  243 (259)
                      |..+...+.
T Consensus       313 ~~~L~~~~~  321 (334)
T d1dcea1         313 LDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            555544444

>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=98.96  E-value=1.1e-07  Score=64.78  Aligned_cols=88  Identities=15%  Similarity=-0.128  Sum_probs=66.0

Q ss_pred             HHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHH
Q 036731           58 IHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGL  137 (259)
Q Consensus        58 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  137 (259)
                      ...+...|+++.|++.|.++    .+|+..+|..+..+|...|++++|++.|++..+.+  |+     +...|..+..+|
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld--p~-----~~~a~~~~g~~~   80 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KH-----LAVAYFQRGMLY   80 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh--hh-----hhhhHHHHHHHH
Confidence            34556778888888887653    34566777788888888888888888888887643  33     457888888888


Q ss_pred             HhcCChHHHHHHHHHHHHc
Q 036731          138 CKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~  156 (259)
                      .+.|++++|...|++....
T Consensus        81 ~~~g~~~~A~~~~~kAl~~   99 (192)
T d1hh8a_          81 YQTEKYDLAIKDLKEALIQ   99 (192)
T ss_dssp             HHTTCHHHHHHHHHHHHHT
T ss_pred             HhhccHHHHHHHHHHHHHh
Confidence            8888888888888877653

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.86  E-value=1.2e-08  Score=75.97  Aligned_cols=190  Identities=10%  Similarity=0.019  Sum_probs=127.4

Q ss_pred             CCHHHHHHHHHHHHhcC--ChHHHHHHHHHHhhCCCCCchHhHH-HHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHH
Q 036731           14 PNTVTYNTIIDGLCKEG--FVDKAKELFLQMKDENINPNVVTYN-SLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFN   90 (259)
Q Consensus        14 ~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   90 (259)
                      .+...|..+..++...+  ++++|...+.++.+.. +++...+. .....+...+.++.|+..++.+...... +...|+
T Consensus       105 k~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~  182 (334)
T d1dcea1         105 KSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWH  182 (334)
T ss_dssp             TCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHH
T ss_pred             CcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHH
Confidence            36677777777777665  4789999999998763 33555554 4446777889999999999988877543 677888


Q ss_pred             HHHHHHHHcCCHHHHH--------------HHHHHHHhCCCCCCCc---------cchhHHHHHHHHHHHHhcCChHHHH
Q 036731           91 VIMDELCKNRKMDEAT--------------RLLDLMIQGGVRPDAF---------CEINIVAYGCLIDGLCKIGKLKNAR  147 (259)
Q Consensus        91 ~l~~~~~~~~~~~~a~--------------~~~~~~~~~~~~~~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~  147 (259)
                      .+..++...|++++|.              ..+......+......         .+.+...+..+...+...++.++|.
T Consensus       183 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~  262 (334)
T d1dcea1         183 YRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESC  262 (334)
T ss_dssp             HHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHH
Confidence            8888888877654331              1111111111100000         0002234455666777788899999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc-HHHHHHHHHHHH
Q 036731          148 ELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPN-CVIFTTLMPSFI  208 (259)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~  208 (259)
                      ..+.+..+.... +..++..+..++...|++++|.+.+++..+.  .|+ ...|..|...+.
T Consensus       263 ~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         263 KELQELEPENKW-CLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHCTTCHH-HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHHHHh
Confidence            999888766422 5567888889999999999999999999887  564 445555554444

>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=98.85  E-value=2.3e-07  Score=57.68  Aligned_cols=94  Identities=14%  Similarity=0.027  Sum_probs=83.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHc
Q 036731           20 NTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKN   99 (259)
Q Consensus        20 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   99 (259)
                      ..-...+.+.|++++|+..|++..+.. +-+...|..+..++...|++++|+..+....+.+. .+...|..+..++...
T Consensus         7 ~~~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           7 KEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhcc-chhhHHHHHHHHHHHc
Confidence            345677889999999999999998874 55778899999999999999999999999998754 4788899999999999


Q ss_pred             CCHHHHHHHHHHHHhC
Q 036731          100 RKMDEATRLLDLMIQG  115 (259)
Q Consensus       100 ~~~~~a~~~~~~~~~~  115 (259)
                      |++++|+..|++..+.
T Consensus        85 ~~~~~A~~~~~~a~~~  100 (117)
T d1elwa_          85 NRFEEAKRTYEEGLKH  100 (117)
T ss_dssp             TCHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHh
Confidence            9999999999999875

>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=98.83  E-value=7e-08  Score=66.11  Aligned_cols=101  Identities=12%  Similarity=-0.028  Sum_probs=89.0

Q ss_pred             cCCHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHH
Q 036731           13 KPNTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVI   92 (259)
Q Consensus        13 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   92 (259)
                      .|++..+......+.+.|++++|+..|++..... +-+...|..+..+|.+.|++++|+..|+...+... -+..+|..+
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p-~~~~a~~~l   78 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFL   78 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCC-CcHHHHHHH
Confidence            3788888889999999999999999999988764 55788899999999999999999999999987632 257789999


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhC
Q 036731           93 MDELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        93 ~~~~~~~~~~~~a~~~~~~~~~~  115 (259)
                      ..+|...|++++|+..|++..+.
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999999999999987753

>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=98.82  E-value=2.4e-07  Score=60.98  Aligned_cols=97  Identities=11%  Similarity=0.018  Sum_probs=84.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELC   97 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   97 (259)
                      .+......|.+.|++++|...|++..+.. +-+...|..+..++...|++++|...|+...+.. +.+..+|..+..++.
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            35556678899999999999999999874 4578889999999999999999999999999874 336788999999999


Q ss_pred             HcCCHHHHHHHHHHHHhCC
Q 036731           98 KNRKMDEATRLLDLMIQGG  116 (259)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~  116 (259)
                      ..|++++|...+++.....
T Consensus        90 ~~g~~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          90 ALGKFRAALRDYETVVKVK  108 (159)
T ss_dssp             HTTCHHHHHHHHHHHHHHS
T ss_pred             HcCCHHHHHHHHHHHHHcC
Confidence            9999999999999998753

>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=98.81  E-value=8.5e-08  Score=65.67  Aligned_cols=100  Identities=11%  Similarity=-0.054  Sum_probs=88.4

Q ss_pred             CchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHH
Q 036731           49 PNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIV  128 (259)
Q Consensus        49 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  128 (259)
                      |+...+......+.+.|++++|+..|.+..... +.+...|..+..+|.+.|++++|+..|++..+.  .|+     +..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~-----~~~   73 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQ-----SVK   73 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTT-----CHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCC-----cHH
Confidence            677778888899999999999999999998875 347888999999999999999999999998764  454     568


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      +|..+..+|...|++++|...|++..+.
T Consensus        74 a~~~lg~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          74 AHFFLGQCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            8999999999999999999999988764

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.81  E-value=2.8e-07  Score=60.65  Aligned_cols=91  Identities=12%  Similarity=0.074  Sum_probs=57.6

Q ss_pred             HHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHH
Q 036731           58 IHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGL  137 (259)
Q Consensus        58 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  137 (259)
                      ...|.+.|++++|+..|++..+... -+...|..+..+|...|++++|...|++..+..  |+     +..+|..+..++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~--p~-----~~~a~~~~g~~~   88 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KK-----YIKGYYRRAASN   88 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT-----CHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccch-hhhhhhhhhHHHHHhccccchHHHHHHHHHHHc--cc-----chHHHHHHHHHH
Confidence            4455666777777777766666532 255666666666666677777777666666542  32     345666666666


Q ss_pred             HhcCChHHHHHHHHHHHHc
Q 036731          138 CKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~  156 (259)
                      ...|++++|...+++....
T Consensus        89 ~~~g~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          89 MALGKFRAALRDYETVVKV  107 (159)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHc
Confidence            6667777776666666654

>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=98.81  E-value=5.9e-06  Score=58.88  Aligned_cols=219  Identities=9%  Similarity=-0.045  Sum_probs=153.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhh----cCChhHHHHHHHHHHHcCCCCchhhHH
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCY----ANDGNEAEYLFIEMMDRGLQSDVVTFN   90 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   90 (259)
                      |+..+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...+......+   +.....
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            56677888888889999999999999998876   56666667777765    668889999998888775   334444


Q ss_pred             HHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCh
Q 036731           91 VIMDELCK----NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK----IGKLKNARELSQSLTRAGLMPNV  162 (259)
Q Consensus        91 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~  162 (259)
                      .+...+..    ..+.+.|...+++....|..         .....+...+..    ......+...+......+   +.
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---------~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~  142 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---------EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DG  142 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---------HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhh---------hHHHhhcccccCCCcccchhHHHHHHhhhhhccc---cc
Confidence            45444443    46788899999988876543         333344444433    345667777777766643   56


Q ss_pred             hhHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCccchHH
Q 036731          163 VTYNITIHALCN----DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR----KNETSKVIELLRSMDKRNVMPYASI  234 (259)
Q Consensus       163 ~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  234 (259)
                      ..+..+...+..    ..+...+..+++...+.|   +......+...+..    ..++++|..+|++..+.|   ++..
T Consensus       143 ~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a  216 (265)
T d1ouva_         143 DGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGG  216 (265)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             chhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHH
Confidence            677777777775    445667777888777765   45555556555554    568999999999998876   3445


Q ss_pred             HHHHHHHHHH----hcccCCcchhhhc
Q 036731          235 LSIIVDLLVK----NEISLNSIPQFNR  257 (259)
Q Consensus       235 ~~~l~~~~~~----~g~~~~a~~~~~~  257 (259)
                      +..|...|..    ..+.++|.+.|++
T Consensus       217 ~~~LG~~y~~G~g~~~n~~~A~~~~~k  243 (265)
T d1ouva_         217 CFNLGAMQYNGEGVTRNEKQAIENFKK  243 (265)
T ss_dssp             HHHHHHHHHTTSSSSCCSTTHHHHHHH
T ss_pred             HHHHHHHHHcCCCCccCHHHHHHHHHH
Confidence            6667777765    3367888888864

>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=98.80  E-value=4.1e-07  Score=56.48  Aligned_cols=96  Identities=10%  Similarity=-0.055  Sum_probs=84.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 036731          130 YGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR  209 (259)
Q Consensus       130 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  209 (259)
                      +..-...+.+.|++++|+..|++..+... -+...|..+..++...|++++|...+....+.+ +.+...|..+..++..
T Consensus         6 l~~~g~~~~~~g~~~eAi~~~~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~   83 (117)
T d1elwa_           6 LKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEF   83 (117)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCC-cchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHH
Confidence            34456778899999999999999998753 367789999999999999999999999999874 5578889999999999


Q ss_pred             cCCHHHHHHHHHHHhhCC
Q 036731          210 KNETSKVIELLRSMDKRN  227 (259)
Q Consensus       210 ~~~~~~a~~~~~~~~~~~  227 (259)
                      .|++++|...+++..+..
T Consensus        84 ~~~~~~A~~~~~~a~~~~  101 (117)
T d1elwa_          84 LNRFEEAKRTYEEGLKHE  101 (117)
T ss_dssp             TTCHHHHHHHHHHHHTTC
T ss_pred             ccCHHHHHHHHHHHHHhC
Confidence            999999999999999764

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.64  E-value=2.9e-07  Score=56.69  Aligned_cols=86  Identities=13%  Similarity=0.009  Sum_probs=42.1

Q ss_pred             HHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHH
Q 036731           59 HGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLC  138 (259)
Q Consensus        59 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  138 (259)
                      ..+.+.|++++|...|++....... +...|..+..++.+.|++++|+..|++..+.  .|+     +..++..+..+|.
T Consensus        24 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~-----~~~a~~~la~~y~   95 (112)
T d1hxia_          24 LSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARML--DPK-----DIAVHAALAVSHT   95 (112)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT-----CHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhccccccccc--ccc-----cccchHHHHHHHH
Confidence            3444455555555555555444211 3444555555555555555555555554443  222     3345555555555


Q ss_pred             hcCChHHHHHHHHH
Q 036731          139 KIGKLKNARELSQS  152 (259)
Q Consensus       139 ~~~~~~~a~~~~~~  152 (259)
                      ..|++++|.+.+++
T Consensus        96 ~~g~~~~A~~~l~~  109 (112)
T d1hxia_          96 NEHNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHH
Confidence            55555555555544

>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=98.63  E-value=4.6e-07  Score=55.72  Aligned_cols=92  Identities=10%  Similarity=-0.052  Sum_probs=80.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHc
Q 036731           20 NTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKN   99 (259)
Q Consensus        20 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   99 (259)
                      -.+...+.+.|++++|...|++..... +-+...|..+..++.+.|++++|+..+++..+... .+...|..+..+|...
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhccccccccccc-ccccchHHHHHHHHHC
Confidence            346677889999999999999998874 34688999999999999999999999999998743 3688899999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 036731          100 RKMDEATRLLDLMI  113 (259)
Q Consensus       100 ~~~~~a~~~~~~~~  113 (259)
                      |++++|.+.+++..
T Consensus        98 g~~~~A~~~l~~~l  111 (112)
T d1hxia_          98 HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999998763

>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=98.56  E-value=3.1e-07  Score=57.34  Aligned_cols=98  Identities=11%  Similarity=0.094  Sum_probs=80.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCC---hhHHHHHHHHHHHcCCCCc-hhhHHHHHHH
Q 036731           20 NTIIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYAND---GNEAEYLFIEMMDRGLQSD-VVTFNVIMDE   95 (259)
Q Consensus        20 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~   95 (259)
                      ..++..+...+++++|.+.|+.....+ +.+..++..+..++.+.++   +++|+.+++++...+..|+ ..++..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            457888899999999999999999874 5577888888888887655   4569999999887654444 3477889999


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCC
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPD  120 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~  120 (259)
                      |.+.|++++|.+.|+++.+.  .|+
T Consensus        82 y~~~g~~~~A~~~~~~aL~~--~P~  104 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT--EPQ  104 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             HHHHhhhHHHHHHHHHHHHh--CcC
Confidence            99999999999999999985  454

>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=98.55  E-value=8.9e-07  Score=55.23  Aligned_cols=103  Identities=17%  Similarity=0.108  Sum_probs=81.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC---hhHHHHHHHHHHhcCCCCc-HHHHHHHHHH
Q 036731          131 GCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQ---MDKAHDLFLDMEVKGVAPN-CVIFTTLMPS  206 (259)
Q Consensus       131 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~  206 (259)
                      ..++..+...+++++|.+.|+.....+. .+..++..+..++.+.++   +++|..+++++...+..|+ ..++..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p-~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            4677888899999999999999998753 377888888888887554   5579999999987643333 2467788999


Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCccchHHHH
Q 036731          207 FIRKNETSKVIELLRSMDKRNVMPYASILS  236 (259)
Q Consensus       207 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  236 (259)
                      |.+.|++++|.+.|+++++.  .|+..-..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~--~P~~~~A~  109 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT--EPQNNQAK  109 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHh--CcCCHHHH
Confidence            99999999999999999986  45544333

>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=98.48  E-value=1.1e-05  Score=53.35  Aligned_cols=98  Identities=8%  Similarity=-0.094  Sum_probs=68.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCC-----CCC---------chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCC
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDEN-----INP---------NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGL   82 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~   82 (259)
                      ..+......+.+.|++++|+..|.+..+.-     ...         ...+|+.+..+|.+.|++++|+..++.......
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p   93 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDS   93 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhccc
Confidence            345556678889999999999998887541     010         123455566677777888888888877777642


Q ss_pred             CCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 036731           83 QSDVVTFNVIMDELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        83 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  115 (259)
                       .+..++..+..+|...|++++|...|++..+.
T Consensus        94 -~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          94 -NNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             -TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -cchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence             26667777777788888888888888777764

>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=98.48  E-value=1.3e-05  Score=53.08  Aligned_cols=76  Identities=16%  Similarity=-0.043  Sum_probs=58.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC-cHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAP-NCVIFTTLMPS  206 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~  206 (259)
                      .+|+.+..+|.+.|++++|+..++...+... .+...|..+..++...|++++|...|+...+.  .| +......+-..
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p-~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n~~~~~~l~~~  139 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDS-NNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVC  139 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccc-cchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            5677788889999999999999999888753 26778888888999999999999999998876  34 44444444333

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.48  E-value=3.3e-06  Score=53.13  Aligned_cols=102  Identities=12%  Similarity=0.016  Sum_probs=75.5

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHH
Q 036731           54 YNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCL  133 (259)
Q Consensus        54 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l  133 (259)
                      +..+...+.+.|++++|+..|.+..+.+. .+...+..+..+|.+.|++++|+..++++.+...........-..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            45567788888999999999998888743 36778888999999999999999999887753221110000112467778


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHc
Q 036731          134 IDGLCKIGKLKNARELSQSLTRA  156 (259)
Q Consensus       134 ~~~~~~~~~~~~a~~~~~~~~~~  156 (259)
                      ...+...+++++|...|+.....
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            88888888999999999887664

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.43  E-value=4.8e-06  Score=52.32  Aligned_cols=95  Identities=15%  Similarity=0.180  Sum_probs=54.3

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC-----hh
Q 036731           90 NVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLM-PN-----VV  163 (259)
Q Consensus        90 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-----~~  163 (259)
                      ..+...+.+.|++++|+..|.+..+.  .|+     +..++..+..+|.+.|++++|...++++.+.... +.     ..
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~--~p~-----~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~   80 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKEL--DPT-----NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAK   80 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTT-----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh--Ccc-----cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            34556666677777777777666654  232     3466666777777777777777777666543211 00     12


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          164 TYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       164 ~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      +|..+...+...+++++|...|++....
T Consensus        81 ~~~~lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          81 AYARIGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            3444444555556666666666555443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.39  E-value=2e-05  Score=51.12  Aligned_cols=99  Identities=13%  Similarity=0.021  Sum_probs=48.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCCc---------cchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh
Q 036731           92 IMDELCKNRKMDEATRLLDLMIQGGVRPDAF---------CEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNV  162 (259)
Q Consensus        92 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  162 (259)
                      -...+.+.|++.+|+..|.+....-......         ......+|+.+..+|.+.|++++|+..++...+.+ +.+.
T Consensus        23 ~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~  101 (153)
T d2fbna1          23 EGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNV  101 (153)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhh
Confidence            3444555666666666666555321111100         00012344455555555555555555555555443 1244


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          163 VTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       163 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      .+|..+..++...|++++|...|++..+.
T Consensus       102 ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1         102 KALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45555555555555555555555555544

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.36  E-value=1.6e-05  Score=52.99  Aligned_cols=71  Identities=13%  Similarity=0.097  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHh-----cCCCCcHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEV-----KGVAPNCVI  199 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~p~~~~  199 (259)
                      ..+..+..++...|++++|...++++..... -+...|..++.++...|+..+|++.|+++..     .|+.|+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~P-~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            5677777888888888888888888777643 3667788888888888888888888877643     477777654

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.32  E-value=2.5e-05  Score=50.60  Aligned_cols=99  Identities=10%  Similarity=-0.058  Sum_probs=80.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHhhCC----CCCc-----------hHhHHHHHHHHhhcCChhHHHHHHHHHHHcC
Q 036731           17 VTYNTIIDGLCKEGFVDKAKELFLQMKDEN----INPN-----------VVTYNSLIHGFCYANDGNEAEYLFIEMMDRG   81 (259)
Q Consensus        17 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~-----------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~   81 (259)
                      ..+..-...+.+.|++.+|+..|.+....-    ..++           ..+|..+..+|.+.|++++|++.++...+..
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~   97 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID   97 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc
Confidence            456666778889999999999999987531    1111           2356678888999999999999999999874


Q ss_pred             CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 036731           82 LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGG  116 (259)
Q Consensus        82 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  116 (259)
                       +.+..+|..+..++...|++++|...|++..+..
T Consensus        98 -p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          98 -KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             -chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence             3478899999999999999999999999998753

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.31  E-value=6.4e-05  Score=49.42  Aligned_cols=78  Identities=13%  Similarity=-0.043  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      .+|+.+..+|.+.|++++|+..++...+.. +.+...|..+..++...|++++|...|+++.... +.+......+-...
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  142 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMCQ  142 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            567778888899999999999999988864 3467788888889999999999999999988763 23444444444333

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.28  E-value=1.6e-05  Score=52.49  Aligned_cols=113  Identities=11%  Similarity=-0.025  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhC--------------CC-CCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCC
Q 036731           18 TYNTIIDGLCKEGFVDKAKELFLQMKDE--------------NI-NPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGL   82 (259)
Q Consensus        18 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------------~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~   82 (259)
                      .+......+.+.|++++|++.|.++.+.              .+ +.+...|..+..++.+.|++++|+..++...+...
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p  108 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP  108 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhh
Confidence            3555667788899999999999887531              01 12344567778889999999999999999998743


Q ss_pred             CCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHH
Q 036731           83 QSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLC  138 (259)
Q Consensus        83 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  138 (259)
                       .+...|..+..++...|++++|+..|++..+.  .|+     +..+...+..+..
T Consensus       109 -~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~-----n~~~~~~l~~~~~  156 (169)
T d1ihga1         109 -SNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APE-----DKAIQAELLKVKQ  156 (169)
T ss_dssp             -TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT-----CHHHHHHHHHHHH
T ss_pred             -hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCC-----CHHHHHHHHHHHH
Confidence             36788999999999999999999999999885  343     3455555554443

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.28  E-value=2.1e-05  Score=51.87  Aligned_cols=63  Identities=8%  Similarity=-0.088  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVK  191 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  191 (259)
                      ..+..+..++.+.|++++|+..+++..+... .+...|..+..++...|++++|...|+...+.
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p-~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhhhh-hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            4444555555555555555555555554432 23445555555555555555555555555544

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.25  E-value=4.8e-05  Score=50.60  Aligned_cols=122  Identities=11%  Similarity=0.040  Sum_probs=85.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCC
Q 036731           22 IIDGLCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRK  101 (259)
Q Consensus        22 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  101 (259)
                      ........|++++|.+.|......  .+...        +......+-+...-..+...    ....+..+..++...|+
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l--~rG~~--------l~~~~~~~w~~~~r~~l~~~----~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALRE--WRGPV--------LDDLRDFQFVEPFATALVED----KVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTT--CCSST--------TGGGTTSTTHHHHHHHHHHH----HHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhh--Ccccc--------cccCcchHHHHHHHHHHHHH----HHHHHHHHHHHHHHCCC
Confidence            345677889999999999888764  11110        00111111122222222222    34567789999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHH-----cCCCCChhh
Q 036731          102 MDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTR-----AGLMPNVVT  164 (259)
Q Consensus       102 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  164 (259)
                      +++|+..++++...  .|.     +...|..++.++.+.|+..+|++.|+++.+     .|+.|...+
T Consensus        83 ~~~Al~~~~~al~~--~P~-----~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          83 ASAVIAELEALTFE--HPY-----REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHH--STT-----CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             chHHHHHHHHHHHh--CCc-----cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            99999999999875  343     569999999999999999999999999754     588888654

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.23  E-value=0.00015  Score=47.56  Aligned_cols=118  Identities=8%  Similarity=-0.059  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHhhC---CCCC-----------chHhHHHHHHHHhhcCChhHHHHHHHHHHHcC
Q 036731           16 TVTYNTIIDGLCKEGFVDKAKELFLQMKDE---NINP-----------NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRG   81 (259)
Q Consensus        16 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~   81 (259)
                      +..+.-....+.+.|++.+|...|++....   ...+           ....|..+..+|.+.|++++|+..++......
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~   94 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD   94 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc
Confidence            345666778889999999999999887642   1111           12234456667788888888888888888764


Q ss_pred             CCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC
Q 036731           82 LQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG  141 (259)
Q Consensus        82 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  141 (259)
                       +.+...|..+..++...|++++|...|.++.+.  .|+     +..+...+-.+..+.+
T Consensus        95 -p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~-----n~~~~~~l~~~~~~~~  146 (168)
T d1kt1a1          95 -SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQ-----NKAARLQIFMCQKKAK  146 (168)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTT-----CHHHHHHHHHHHHHHH
T ss_pred             -cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC-----CHHHHHHHHHHHHHHH
Confidence             336777888888888888888888888888764  343     3344544444444333

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=98.03  E-value=6.9e-06  Score=58.41  Aligned_cols=53  Identities=19%  Similarity=0.286  Sum_probs=29.0

Q ss_pred             HhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHc
Q 036731           27 CKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDR   80 (259)
Q Consensus        27 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~   80 (259)
                      .+.|++++|+..+++..+.. +-|...+..+...++..|++++|...++...+.
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            34555555555555555542 334455555555555555555555555555544

>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=97.99  E-value=1.1e-05  Score=57.31  Aligned_cols=122  Identities=15%  Similarity=0.107  Sum_probs=82.0

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHh
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPN-VVTYNITIHALCN  174 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~  174 (259)
                      ..+.|++++|+..+++..+.  .|+     +...+..+...++..|++++|...++...+..  |+ ...+..+...+..
T Consensus         6 aL~~G~l~eAl~~l~~al~~--~P~-----d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll~a   76 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKA--SPK-----DASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKA   76 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT--CTT-----CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH--CCC-----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHh
Confidence            34679999999999999886  444     67999999999999999999999999998863  43 3344444444433


Q ss_pred             cCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 036731          175 DEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKR  226 (259)
Q Consensus       175 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  226 (259)
                      .+..+++..-.......+-+++...+......+...|+.++|.+.+.++.+.
T Consensus        77 ~~~~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          77 AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ccccHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            3333332221111111111223344444556778899999999999998764

>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=97.99  E-value=4.9e-05  Score=59.26  Aligned_cols=115  Identities=11%  Similarity=-0.104  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 036731          128 VAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSF  207 (259)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  207 (259)
                      ..+..+...+.+.|+.+.|...++......   ...++..+...+...|++++|...|++..+.. +-+...|+.|...+
T Consensus       121 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~  196 (497)
T d1ya0a1         121 VKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILA  196 (497)
T ss_dssp             ----------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHH
T ss_pred             HHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            445555555555555555555544433221   12344445555555556666666665555541 22334555555555


Q ss_pred             HhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhcc
Q 036731          208 IRKNETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEI  247 (259)
Q Consensus       208 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  247 (259)
                      ...|+..+|...|.+.+... +|...++..|...+.+..+
T Consensus       197 ~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~~~  235 (497)
T d1ya0a1         197 SSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKALE  235 (497)
T ss_dssp             HHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHHTT
T ss_pred             HHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHhhh
Confidence            55666666665555555443 3444555555555554443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.91  E-value=4.9e-05  Score=59.26  Aligned_cols=61  Identities=10%  Similarity=-0.119  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 036731          129 AYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEV  190 (259)
Q Consensus       129 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  190 (259)
                      ++..+...+...|++++|...|++..+... -+...|+.+...+...|+..+|...|.+...
T Consensus       154 ~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P-~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~  214 (497)
T d1ya0a1         154 CLVHLGDIARYRNQTSQAESYYRHAAQLVP-SNGQPYNQLAILASSKGDHLTTIFYYCRSIA  214 (497)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CchHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            444444445555555555555555444321 1333455555555555555555554444443

>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=97.89  E-value=9.9e-05  Score=47.18  Aligned_cols=95  Identities=12%  Similarity=0.015  Sum_probs=56.1

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH----------cCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHH
Q 036731           63 YANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK----------NRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGC  132 (259)
Q Consensus        63 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  132 (259)
                      +.+.+++|...|+...+.. +.+..++..+..+|..          .+.+++|+..|++..+.  .|+     +..+|..
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l--~P~-----~~~a~~~   80 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPK-----KDEAVWC   80 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTT-----CHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh--cch-----hhHHHhh
Confidence            3445666666666666553 2244555555555543          24457899999988875  454     5688888


Q ss_pred             HHHHHHhcCC-----------hHHHHHHHHHHHHcCCCCChhhHHH
Q 036731          133 LIDGLCKIGK-----------LKNARELSQSLTRAGLMPNVVTYNI  167 (259)
Q Consensus       133 l~~~~~~~~~-----------~~~a~~~~~~~~~~~~~~~~~~~~~  167 (259)
                      +..+|...|+           +++|.+.|++..+.  .|+...|..
T Consensus        81 lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~  124 (145)
T d1zu2a1          81 IGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLK  124 (145)
T ss_dssp             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HHHHHHHcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHH
Confidence            8888876653           34555555555543  344444433

>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=97.88  E-value=8.3e-05  Score=47.54  Aligned_cols=116  Identities=9%  Similarity=-0.021  Sum_probs=74.0

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC----------ChHHHHHHHHHHHHcCCCCChhhH
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG----------KLKNARELSQSLTRAGLMPNVVTY  165 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------~~~~a~~~~~~~~~~~~~~~~~~~  165 (259)
                      |-+.+.+++|...|+...+.  .|+     +..++..+..++...+          .+++|...|++..+.+.. +..+|
T Consensus         7 ~~r~~~fe~A~~~~e~al~~--~P~-----~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~   78 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKS--NPL-----DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAV   78 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--CTT-----CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhh--CCc-----chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHH
Confidence            45567799999999999885  454     5688888888887543          456788888888776432 56677


Q ss_pred             HHHHHHHHhcCC-----------hhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 036731          166 NITIHALCNDEQ-----------MDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRN  227 (259)
Q Consensus       166 ~~li~~~~~~~~-----------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  227 (259)
                      ..+..+|...|+           +++|.+.|++..+.  .|+...+..-+..+      .+|.+++.+..+.|
T Consensus        79 ~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1          79 WCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             hhHHHHHHHcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence            777777765443           45666666666654  45544444333322      33445555544443

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.84  E-value=0.0018  Score=45.43  Aligned_cols=187  Identities=7%  Similarity=-0.078  Sum_probs=124.4

Q ss_pred             chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCCccch
Q 036731           50 NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK----NRKMDEATRLLDLMIQGGVRPDAFCEI  125 (259)
Q Consensus        50 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  125 (259)
                      |+..+..|...+...+++++|++.|++..+.|   +...+..|...|..    ..+...|...+......+..       
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~-------   70 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYS-------   70 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH-------
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccccc-------
Confidence            45567777788889999999999999998876   55666667777776    66889999999988776532       


Q ss_pred             hHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH----hcCChhHHHHHHHHHHhcCCCCcH
Q 036731          126 NIVAYGCLIDGLCK----IGKLKNARELSQSLTRAGLMPNVVTYNITIHALC----NDEQMDKAHDLFLDMEVKGVAPNC  197 (259)
Q Consensus       126 ~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~----~~~~~~~a~~~~~~~~~~~~~p~~  197 (259)
                        .....+...+..    ..+.+.|...++...+.|..   .....+...+.    .......+...+......   .+.
T Consensus        71 --~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~  142 (265)
T d1ouva_          71 --NGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDG  142 (265)
T ss_dssp             --HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCH
T ss_pred             --chhhccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---ccc
Confidence              445555555543    45788899999998887632   22333333333    234466677777766654   355


Q ss_pred             HHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHH----hcccCCcchhhhc
Q 036731          198 VIFTTLMPSFIR----KNETSKVIELLRSMDKRNVMPYASILSIIVDLLVK----NEISLNSIPQFNR  257 (259)
Q Consensus       198 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~  257 (259)
                      ..+..|...+..    ..+...+..+++...+.|   +......+...|..    ..+.++|+..|++
T Consensus       143 ~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~  207 (265)
T d1ouva_         143 DGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSK  207 (265)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHH
T ss_pred             chhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhh
Confidence            667777777664    456777888888777665   34444555555554    3355666666643

>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=97.81  E-value=0.00046  Score=44.52  Aligned_cols=99  Identities=13%  Similarity=0.040  Sum_probs=74.7

Q ss_pred             HHHHHHH--HHHHHhcCChHHHHHHHHHHhhC--CCCC---------chHhHHHHHHHHhhcCChhHHHHHHHHHHHc--
Q 036731           16 TVTYNTI--IDGLCKEGFVDKAKELFLQMKDE--NINP---------NVVTYNSLIHGFCYANDGNEAEYLFIEMMDR--   80 (259)
Q Consensus        16 ~~~~~~l--l~~~~~~~~~~~a~~~~~~~~~~--~~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--   80 (259)
                      ..+|..+  ...+.+.|++++|++.|++..+.  ..+.         ....|+.+..+|...|++++|...+++....  
T Consensus         7 a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           7 VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            4567777  45566789999999999998763  1111         1357888999999999999999999887642  


Q ss_pred             ---CCCCc-----hhhHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 036731           81 ---GLQSD-----VVTFNVIMDELCKNRKMDEATRLLDLMIQ  114 (259)
Q Consensus        81 ---~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  114 (259)
                         ...++     ...++.+..+|...|++++|+..|++..+
T Consensus        87 ~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          87 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               11111     22567788999999999999999998764

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.77  E-value=0.00018  Score=42.20  Aligned_cols=73  Identities=8%  Similarity=-0.021  Sum_probs=54.1

Q ss_pred             chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 036731           85 DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAG  157 (259)
Q Consensus        85 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  157 (259)
                      +...+-.+...+.+.|++++|...|++..+..............++..+..++.+.|++++|...+++..+..
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            3445567888899999999999999887643211110011135789999999999999999999999998864

>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=97.74  E-value=0.00052  Score=44.24  Aligned_cols=103  Identities=18%  Similarity=0.103  Sum_probs=73.4

Q ss_pred             HhHHHH--HHHHhhcCChhHHHHHHHHHHHcCCC-C----------chhhHHHHHHHHHHcCCHHHHHHHHHHHHhC---
Q 036731           52 VTYNSL--IHGFCYANDGNEAEYLFIEMMDRGLQ-S----------DVVTFNVIMDELCKNRKMDEATRLLDLMIQG---  115 (259)
Q Consensus        52 ~~~~~l--i~~~~~~~~~~~a~~~~~~~~~~~~~-~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  115 (259)
                      .+|..+  ...+...|++++|++.|++..+.... |          ....|+.+..+|...|++++|...+++....   
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            355555  45667889999999999998863211 1          1356888999999999999999999887642   


Q ss_pred             --CCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 036731          116 --GVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTR  155 (259)
Q Consensus       116 --~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  155 (259)
                        ...++. ......+++.+..+|...|++++|...|++..+
T Consensus        88 ~~~~~~~~-~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          88 RGELNQDE-GKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HCCTTSTH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccc-cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              111111 011234577788889999999999999988764

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.60  E-value=0.00063  Score=39.70  Aligned_cols=77  Identities=9%  Similarity=-0.069  Sum_probs=53.7

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHhhC-----CCCC-chHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhh
Q 036731           15 NTVTYNTIIDGLCKEGFVDKAKELFLQMKDE-----NINP-NVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVT   88 (259)
Q Consensus        15 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   88 (259)
                      ++..+-.+...+.+.|++++|...|++..+.     ...+ ...+++.+..++.+.|++++|+..++++.+..+. +..+
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~-~~~a   82 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE-HQRA   82 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcC-CHHH
Confidence            3445556788888899999999988887643     1111 2456788888888999999999999888877422 3444


Q ss_pred             HHHH
Q 036731           89 FNVI   92 (259)
Q Consensus        89 ~~~l   92 (259)
                      ++.+
T Consensus        83 ~~Nl   86 (95)
T d1tjca_          83 NGNL   86 (95)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.45  E-value=0.0097  Score=43.28  Aligned_cols=50  Identities=8%  Similarity=0.053  Sum_probs=29.6

Q ss_pred             chhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcC
Q 036731           85 DVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIG  141 (259)
Q Consensus        85 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  141 (259)
                      +......++..|-..|.+++...+++.....  .+.     +...++-++..|++.+
T Consensus        98 ~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~--~~~-----~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          98 HADELEELINYYQDRGYFEELITMLEAALGL--ERA-----HMGMFTELAILYSKFK  147 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--TTC-----CHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHcC--Ccc-----chHHHHHHHHHHHHhC
Confidence            4444456667777777777777777665432  111     3456667777776653

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=97.18  E-value=0.0089  Score=37.00  Aligned_cols=112  Identities=11%  Similarity=-0.020  Sum_probs=79.5

Q ss_pred             CChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHH----cCCHHHH
Q 036731           30 GFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCK----NRKMDEA  105 (259)
Q Consensus        30 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  105 (259)
                      .|+++|.++|++..+.|   +...+..|..  ....+.++|.+++++..+.|   +...+..|...|..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g---~~~a~~~l~~--~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELN---EMFGCLSLVS--NSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTT---CTTHHHHHHT--CTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCC---Chhhhhhhcc--ccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHH
Confidence            36788999999988876   3333333433  44568889999999988876   45556666666664    4578999


Q ss_pred             HHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCC
Q 036731          106 TRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCK----IGKLKNARELSQSLTRAGL  158 (259)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~  158 (259)
                      .++|++..+.|.         +.....|...|..    ..+.++|...|+...+.|.
T Consensus        79 ~~~~~~aa~~g~---------~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLND---------QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTC---------HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccCc---------chHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            999999888763         2556666666665    3578888888888877763

>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=96.97  E-value=0.015  Score=35.94  Aligned_cols=112  Identities=5%  Similarity=-0.113  Sum_probs=77.8

Q ss_pred             CHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cC
Q 036731          101 KMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCN----DE  176 (259)
Q Consensus       101 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~  176 (259)
                      ++++|.+.|++..+.|..         ..+..+.  .....+.++|...+++..+.|   +......|...|..    ..
T Consensus         8 d~~~A~~~~~kaa~~g~~---------~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~   73 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---------FGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKK   73 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---------THHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCC
T ss_pred             CHHHHHHHHHHHHHCCCh---------hhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccch
Confidence            677888888888776632         2333332  234467889999999988876   44555556555554    45


Q ss_pred             ChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCc
Q 036731          177 QMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIR----KNETSKVIELLRSMDKRNVM  229 (259)
Q Consensus       177 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~  229 (259)
                      +.++|.++|++..+.|   ++.....|...|..    ..+.++|.+++++..+.|..
T Consensus        74 d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          74 DLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             hhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            6889999999998876   34455556556554    46889999999998887743

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=96.90  E-value=0.04  Score=39.94  Aligned_cols=215  Identities=13%  Similarity=0.037  Sum_probs=120.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHh------------------------hCCCCCchHhHHHHHHHHhhcCChhHHHHHH
Q 036731           19 YNTIIDGLCKEGFVDKAKELFLQMK------------------------DENINPNVVTYNSLIHGFCYANDGNEAEYLF   74 (259)
Q Consensus        19 ~~~ll~~~~~~~~~~~a~~~~~~~~------------------------~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~   74 (259)
                      |..++..+.+.+++..|.+++.+.-                        ..+...+......++..|-..|.++....++
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~~~~~~~k~~~~~l~~~~e~~la~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~L  122 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITML  122 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHcCCHHHHHHHHHHHHhCcHHHHHHHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHH
Confidence            3446666666666666655554421                        1122334455567778888888888888888


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCCc--cchhHHHHHHHHHHHHhcCChHHHHHHHHH
Q 036731           75 IEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQGGVRPDAF--CEINIVAYGCLIDGLCKIGKLKNARELSQS  152 (259)
Q Consensus        75 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  152 (259)
                      +..... -.++...++.++.+|++.+ .++..+.+..... ...+...  .......|.-++-.|.+.|+++.|..+.- 
T Consensus       123 e~~~~~-~~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~-~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i-  198 (336)
T d1b89a_         123 EAALGL-ERAHMGMFTELAILYSKFK-PQKMREHLELFWS-RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM-  198 (336)
T ss_dssp             HHHTTS-TTCCHHHHHHHHHHHHTTC-HHHHHHHHHHHST-TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH-
T ss_pred             HHHHcC-CccchHHHHHHHHHHHHhC-hHHHHHHHHhccc-cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHH-
Confidence            877643 2456777888999888865 3444444433211 1111000  00011234455555666666665554432 


Q ss_pred             HHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHH-------------HHHHHhcCCHHHHHHH
Q 036731          153 LTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTL-------------MPSFIRKNETSKVIEL  219 (259)
Q Consensus       153 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l-------------~~~~~~~~~~~~a~~~  219 (259)
                        +.  .++..-...++..+.+..+.+...++.....+.  .|+  ..+.+             +..+.+.++.......
T Consensus       199 --~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p~--~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~  270 (336)
T d1b89a_         199 --NH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KPL--LLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPY  270 (336)
T ss_dssp             --HS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CGG--GHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHH
T ss_pred             --Hc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CHH--HHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHH
Confidence              21  234444555666677777777666666655543  232  23333             4444455555555555


Q ss_pred             HHHHhhCCCccchHHHHHHHHHHHHhccc
Q 036731          220 LRSMDKRNVMPYASILSIIVDLLVKNEIS  248 (259)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  248 (259)
                      +....+.|   +..+.+++.+.|...+++
T Consensus       271 Le~v~~~n---~~~vn~al~~lyie~~d~  296 (336)
T d1b89a_         271 LRSVQNHN---NKSVNESLNNLFITEEDY  296 (336)
T ss_dssp             HHHHHTTC---CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcC---hHHHHHHHHHHHhCcchh
Confidence            55555544   346888899999988875

>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=95.58  E-value=0.11  Score=31.41  Aligned_cols=124  Identities=12%  Similarity=0.112  Sum_probs=83.6

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CC----------------
Q 036731           96 LCKNRKMDEATRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRA-GL----------------  158 (259)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~----------------  158 (259)
                      +.-.|..++..+++.+.....         +..-||.+|--....-+-+-..++++.+-+. ++                
T Consensus        12 ~ildG~ve~Gveii~k~~~ss---------~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~   82 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSS---------TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVIN   82 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---------CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHT
T ss_pred             HHHhhhHHhHHHHHHHHcccC---------CccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHh
Confidence            455788888888888876542         2355666665555555555555555554321 00                


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCc
Q 036731          159 MPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVM  229 (259)
Q Consensus       159 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  229 (259)
                      ..+...+...+.....+|.-++-.++++++.+.+ +|++...-.+..+|.+.|...++-+++.+.-++|++
T Consensus        83 n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          83 NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            1134445666777788888888888888876653 677777888888888899998888888888888765

>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=95.43  E-value=0.12  Score=31.15  Aligned_cols=141  Identities=14%  Similarity=0.132  Sum_probs=83.6

Q ss_pred             HHhcCChHHHHHHHHHHhhCCCCCchHhHHHHHHHHhhcCChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHH
Q 036731           26 LCKEGFVDKAKELFLQMKDENINPNVVTYNSLIHGFCYANDGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEA  105 (259)
Q Consensus        26 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  105 (259)
                      +.-.|.+++..+++.+...+   .+..-||.+|--....-+-+-..++++..-.. +..+            .++++...
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~-FDls------------~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY-FDLD------------KCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG-SCGG------------GCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh-cCch------------hhhcHHHH
Confidence            34567777777777777654   24555666665555555555555555444321 1111            12333333


Q ss_pred             HHHHHHHHhCCCCCCCccchhHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHH
Q 036731          106 TRLLDLMIQGGVRPDAFCEINIVAYGCLIDGLCKIGKLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLF  185 (259)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  185 (259)
                      ...+-.+-   .        +.......++.....|.-++-.++++.+.+.+ .|++...-.+..+|.+.|...++.+++
T Consensus        76 v~C~~~~n---~--------~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell  143 (161)
T d1wy6a1          76 VECGVINN---T--------LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLL  143 (161)
T ss_dssp             HHHHHHTT---C--------CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHhc---c--------hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHH
Confidence            33332221   1        12556666777777788888888888766643 556777777788888888888888888


Q ss_pred             HHHHhcCCC
Q 036731          186 LDMEVKGVA  194 (259)
Q Consensus       186 ~~~~~~~~~  194 (259)
                      .+.-+.|++
T Consensus       144 ~~ACe~G~K  152 (161)
T d1wy6a1         144 IEACKKGEK  152 (161)
T ss_dssp             HHHHHTTCH
T ss_pred             HHHHHHhHH
Confidence            888777754

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=95.12  E-value=0.12  Score=29.41  Aligned_cols=61  Identities=11%  Similarity=0.186  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHHHHHHHH
Q 036731          180 KAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASILSIIVDL  241 (259)
Q Consensus       180 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  241 (259)
                      ++.+-++.+.....-|++.+..+.+++|.+.+++..|.++|+-.+.+ +.++...|..+++-
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilqe   84 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE   84 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHHH
Confidence            45555555666666777777777777777777777777777666543 22234455555443

>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=94.09  E-value=0.24  Score=28.19  Aligned_cols=63  Identities=14%  Similarity=0.161  Sum_probs=50.6

Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 036731          142 KLKNARELSQSLTRAGLMPNVVTYNITIHALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMP  205 (259)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  205 (259)
                      +.-+..+-++.+...+..|++....+.+++|.+.+++..|.++++..+.. +.++...|..++.
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            55577777888888888999999999999999999999999999998865 2334556666554

>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=92.26  E-value=0.63  Score=27.85  Aligned_cols=50  Identities=10%  Similarity=0.078  Sum_probs=28.7

Q ss_pred             ChhHHHHHHHHHHHcCCCCchhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 036731           66 DGNEAEYLFIEMMDRGLQSDVVTFNVIMDELCKNRKMDEATRLLDLMIQG  115 (259)
Q Consensus        66 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  115 (259)
                      +.++++.++++..+.+..-....+-.|.-+|.+.|++++|.+.++.+.+.
T Consensus        53 d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          53 DERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             HHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            34566666666665431111234445566666777777777777766654

>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=90.11  E-value=1.1  Score=26.74  Aligned_cols=74  Identities=7%  Similarity=-0.015  Sum_probs=47.4

Q ss_pred             CChhhHHHHHHHHHhc---CChhHHHHHHHHHHhcCCCCcH-HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCccchHHH
Q 036731          160 PNVVTYNITIHALCND---EQMDKAHDLFLDMEVKGVAPNC-VIFTTLMPSFIRKNETSKVIELLRSMDKRNVMPYASIL  235 (259)
Q Consensus       160 ~~~~~~~~li~~~~~~---~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  235 (259)
                      |+..|--...-+++++   .+.+++..+++++...+ +.+. ..+-.|.-+|.+.|++++|.+.++.+++.  .|+..-.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i--eP~n~qA  109 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNNKQV  109 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc--CCCcHHH
Confidence            3433333334444443   45678888888888653 2232 45667777888999999999999998875  4544433


Q ss_pred             H
Q 036731          236 S  236 (259)
Q Consensus       236 ~  236 (259)
                      .
T Consensus       110 ~  110 (124)
T d2pqrb1         110 G  110 (124)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=85.83  E-value=5.3  Score=29.61  Aligned_cols=113  Identities=12%  Similarity=0.078  Sum_probs=64.4

Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHHH----HHHhcCChhHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHH
Q 036731          141 GKLKNARELSQSLTRAGLMPNVVTYNITIH----ALCNDEQMDKAHDLFLDMEVKGVAPNCVIFTTLMPSFIRKNETSKV  216 (259)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~----~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  216 (259)
                      .+.+.+...+......... +..-+..+-.    .....+..+.+..++......+  .+.......+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHH
Confidence            4566666666666543221 2222222221    2223455566666666665543  3444444455556677888888


Q ss_pred             HHHHHHHhhCCCccchHHHHHHHHHHHHhcccCCcchhhhc
Q 036731          217 IELLRSMDKRNVMPYASILSIIVDLLVKNEISLNSIPQFNR  257 (259)
Q Consensus       217 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  257 (259)
                      ...++.|... ......-...+..++...|+.++|...|..
T Consensus       305 ~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~  344 (450)
T d1qsaa1         305 NTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQ  344 (450)
T ss_dssp             HHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHH
Confidence            8888777543 222344455677888888888888777654

>d1mzba_ a.4.5.42 (A:) Ferric uptake regulation protein, FUR {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: FUR-like
domain: Ferric uptake regulation protein, FUR
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=81.05  E-value=2.7  Score=25.32  Aligned_cols=60  Identities=2%  Similarity=-0.004  Sum_probs=36.4

Q ss_pred             HHhcCCCCcHHHHHHHHHHHHhc-CCHHHHHHHHHHHhhCCCccchHHHHHHHHHHHHhccc
Q 036731          188 MEVKGVAPNCVIFTTLMPSFIRK-NETSKVIELLRSMDKRNVMPYASILSIIVDLLVKNEIS  248 (259)
Q Consensus       188 ~~~~~~~p~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  248 (259)
                      +.+.|++++.. -..++..+... +.+-.|.++++.+.+.+..++..|....++.+...|-.
T Consensus         7 Lr~~GlR~T~q-R~~Il~~L~~~~~~h~sa~ei~~~l~~~~~~i~~aTVYR~L~~l~e~gli   67 (134)
T d1mzba_           7 LRKAGLKVTLP-RVKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLV   67 (134)
T ss_dssp             HHHTTCCCCHH-HHHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHcCCCCCHH-HHHHHHHHHhCCCCCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHhccEE
Confidence            55666666553 23444555444 33556677777777766666666666666667666654