Citrus Sinensis ID: 027412

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220---
Protein Sequence
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHCI
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHccccHHHcc
Coil and Loop (DISEMBL)
MLIKECHLDAALKLFGQLtdrglepdiityNTIICGYCSLNRLDEAVQLFEKLTcvqlkpnsiTFTILIDAFCKEGRMDDATMMFSKMLekgpkanvvTYSCLIDGYFKSQNMKSAFDVYEEMCennispnivSYSILIDGLCKRGLMEEALYAFHCAldnhllpdvVTYAILIRGYckagrpteAMQLYDSMLrngimpdglLLSTLAdynlqssgsqehci
Flexible Loop (DISEMBL)
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTcvqlkpnsitFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADynlqssgsqehci
Low Complexity Region (SEG)
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHCI
Disordered region (IsUnstruct)
**IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADY************
Disordered Region (DISOPRED)
MLIKEC*LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHCI
Disordered Region (DISEMBL)
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNL**********
Disordered Region (DISPRO)
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQ***I
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHCI
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	223	2.2.26 [Sep-21-2011]
Q9C6S6	840	Putative pentatricopeptid	yes	no	0.986	0.261	0.555	4e-65
Q9SH26	577	Pentatricopeptide repeat-	no	no	0.919	0.355	0.367	3e-40
Q9LQ14	629	Pentatricopeptide repeat-	no	no	0.919	0.325	0.367	2e-39
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.919	0.325	0.371	3e-39
Q9LQ16	632	Pentatricopeptide repeat-	no	no	0.914	0.322	0.357	1e-38
Q9CAN5	614	Pentatricopeptide repeat-	no	no	0.910	0.330	0.365	3e-38
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.914	0.323	0.352	8e-38
Q9SXD8	634	Pentatricopeptide repeat-	no	no	0.914	0.321	0.347	6e-36
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.739	0.256	0.335	1e-35
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.973	0.350	0.321	3e-35

>sp|Q9C6S6|PPR67_ARATH Putative pentatricopeptide repeat-containing protein At1g31840 OS=Arabidopsis thaliana GN=At1g31840 PE=2 SV=2

 Score =  247 bits (631), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 125/225 (55%), Positives = 154/225 (68%), Gaps = 5/225 (2%)

Query: 2   LIKECH-LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
           L+ +CH ++ A K F  L +  +EPDI+TYNT+ICGYCSL RLDEA ++FE L      P
Sbjct: 610 LLFKCHRIEDASKFFNNLIEGKMEPDIVTYNTMICGYCSLRRLDEAERIFELLKVTPFGP 669

Query: 61  NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY 120
           N++T TILI   CK   MD A  MFS M EKG K N VTY CL+D + KS +++ +F ++
Sbjct: 670 NTVTLTILIHVLCKNNDMDGAIRMFSIMAEKGSKPNAVTYGCLMDWFSKSVDIEGSFKLF 729

Query: 121 EEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA 180
           EEM E  ISP+IVSYSI+IDGLCKRG ++EA   FH A+D  LLPDVV YAILIRGYCK 
Sbjct: 730 EEMQEKGISPSIVSYSIIIDGLCKRGRVDEATNIFHQAIDAKLLPDVVAYAILIRGYCKV 789

Query: 181 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN----LQSSGSQEH 221
           GR  EA  LY+ MLRNG+ PD LL   L++YN    L S G   H
Sbjct: 790 GRLVEAALLYEHMLRNGVKPDDLLQRALSEYNPPKWLMSKGVWVH 834

Arabidopsis thaliana (taxid: 3702)

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

 Score =  164 bits (416), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 76/207 (36%), Positives = 130/207 (62%)

Query: 2   LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN 61
            +KE  L  A KL+ ++  R ++PDI TY+++I G+C  +RLDEA  +FE +      PN
Sbjct: 340 FVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPN 399

Query: 62  SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYE 121
            +T+  LI+ FCK  R+D+   +F +M ++G   N VTY+ LI G+F++++  +A  V++
Sbjct: 400 VVTYNTLINGFCKAKRIDEGVELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFK 459

Query: 122 EMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG 181
           +M  + + PNI++Y+ L+DGLCK G +E+A+  F     + + P + TY I+I G CKAG
Sbjct: 460 QMVSDGVHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAG 519

Query: 182 RPTEAMQLYDSMLRNGIMPDGLLLSTL 208
           +  +   L+ S+   G+ PD ++ +T+
Sbjct: 520 KVEDGWDLFCSLSLKGVKPDVIIYNTM 546

Arabidopsis thaliana (taxid: 3702)

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

 Score =  162 bits (410), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 76/207 (36%), Positives = 128/207 (61%)

Query: 2   LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN 61
            +KE  L  A KL+ ++  R ++PDI TY+++I G+C  +RLDEA  +FE +      PN
Sbjct: 335 FVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPN 394

Query: 62  SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYE 121
            +T+  LI  FCK  R+++   +F +M ++G   N VTY+ LI G F++ +   A  +++
Sbjct: 395 VVTYNTLIKGFCKAKRVEEGMELFREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFK 454

Query: 122 EMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG 181
           +M  + + P+I++YSIL+DGLCK G +E+AL  F     + + PD+ TY I+I G CKAG
Sbjct: 455 KMVSDGVPPDIITYSILLDGLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAG 514

Query: 182 RPTEAMQLYDSMLRNGIMPDGLLLSTL 208
           +  +   L+ S+   G+ P+ ++ +T+
Sbjct: 515 KVEDGWDLFCSLSLKGVKPNVIIYTTM 541

Arabidopsis thaliana (taxid: 3702)

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

 Score =  161 bits (407), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 77/207 (37%), Positives = 127/207 (61%)

Query: 2   LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN 61
            +KE  L  A KL+ ++  R ++PDI TY+++I G+C  +RLDEA  +FE +      PN
Sbjct: 336 FVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPN 395

Query: 62  SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYE 121
            +T+  LI  FCK  R+D+   +F +M ++G   N VTY+ LI G+F+++   +A  V++
Sbjct: 396 VVTYNTLIKGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFK 455

Query: 122 EMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG 181
           +M  + + P+I++YSIL+DGLC  G +E AL  F     + + PD+ TY I+I G CKAG
Sbjct: 456 QMVSDGVLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAG 515

Query: 182 RPTEAMQLYDSMLRNGIMPDGLLLSTL 208
           +  +   L+ S+   G+ P+ +  +T+
Sbjct: 516 KVEDGWDLFCSLSLKGVKPNVVTYTTM 542

Arabidopsis thaliana (taxid: 3702)

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

 Score =  159 bits (403), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 74/207 (35%), Positives = 130/207 (62%)

Query: 2   LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN 61
            +KE  L  A KL+ ++  R ++PDI TY+++I G+C  +RLDEA  +FE +      PN
Sbjct: 338 FVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPN 397

Query: 62  SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYE 121
            +T++ LI  FCK  R+++   +F +M ++G   N VTY+ LI G+F++++  +A  V++
Sbjct: 398 VVTYSTLIKGFCKAKRVEEGMELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFK 457

Query: 122 EMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG 181
           +M    + PNI++Y+IL+DGLCK G + +A+  F     + + PD+ TY I+I G CKAG
Sbjct: 458 QMVSVGVHPNILTYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCKAG 517

Query: 182 RPTEAMQLYDSMLRNGIMPDGLLLSTL 208
           +  +  +L+ ++   G+ P+ +  +T+
Sbjct: 518 KVEDGWELFCNLSLKGVSPNVIAYNTM 544

Arabidopsis thaliana (taxid: 3702)

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

 Score =  158 bits (399), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 75/205 (36%), Positives = 125/205 (60%)

Query: 4   KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI 63
           KE  L  A KLF ++  R ++P+I+TYN++I G+C  +RLDEA Q+F  +      P+ +
Sbjct: 322 KEGKLIEAEKLFDEMIQRSIDPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVV 381

Query: 64  TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM 123
           T+  LI+ FCK  ++ D   +F  M  +G   N VTY+ LI G+F++ +  +A  V+++M
Sbjct: 382 TYNTLINGFCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQM 441

Query: 124 CENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRP 183
             + + PNI++Y+ L+DGLCK G +E+A+  F     + + PD+ TY I+  G CKAG+ 
Sbjct: 442 VSDGVHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKV 501

Query: 184 TEAMQLYDSMLRNGIMPDGLLLSTL 208
            +   L+ S+   G+ PD +  +T+
Sbjct: 502 EDGWDLFCSLSLKGVKPDVIAYNTM 526

Arabidopsis thaliana (taxid: 3702)

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

 Score =  157 bits (396), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 73/207 (35%), Positives = 127/207 (61%)

Query: 2   LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN 61
            +KE  L  A KL+ ++  R ++P I+TY+++I G+C  +RLDEA Q+FE +      P+
Sbjct: 336 FVKEGKLVEAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPD 395

Query: 62  SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYE 121
            +T+  LI  FCK  R+++   +F +M ++G   N VTY+ LI G F++ +   A ++++
Sbjct: 396 VVTYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFK 455

Query: 122 EMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG 181
           EM  + + PNI++Y+ L+DGLCK G +E+A+  F     + + P + TY I+I G CKAG
Sbjct: 456 EMVSDGVPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAG 515

Query: 182 RPTEAMQLYDSMLRNGIMPDGLLLSTL 208
           +  +   L+ ++   G+ PD +  +T+
Sbjct: 516 KVEDGWDLFCNLSLKGVKPDVVAYNTM 542

Arabidopsis thaliana (taxid: 3702)

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

 Score =  150 bits (380), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 72/207 (34%), Positives = 121/207 (58%)

Query: 2   LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN 61
            +KE     A KL+  +  R ++PDI TYN+++ G+C  +RLD+A Q+FE +      P+
Sbjct: 340 FVKEGKFVEAEKLYDDMIKRSIDPDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPD 399

Query: 62  SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYE 121
            +T+  LI  FCK  R++D T +F +M  +G   + VTY+ LI G F   +  +A  V++
Sbjct: 400 VVTYNTLIKGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFK 459

Query: 122 EMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG 181
           +M  + + P+I++YSIL+DGLC  G +E+AL  F     + +  D+  Y  +I G CKAG
Sbjct: 460 QMVSDGVPPDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAG 519

Query: 182 RPTEAMQLYDSMLRNGIMPDGLLLSTL 208
           +  +   L+ S+   G+ P+ +  +T+
Sbjct: 520 KVDDGWDLFCSLSLKGVKPNVVTYNTM 546

Arabidopsis thaliana (taxid: 3702)

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

 Score =  149 bits (377), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 67/200 (33%), Positives = 121/200 (60%)

Query: 2   LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN 61
           L K+  LD A  LF ++  +G + DIITYNT+I G+C+  R D+  +L   +   ++ PN
Sbjct: 273 LCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMIKRKISPN 332

Query: 62  SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYE 121
            +TF++LID+F KEG++ +A  +  +M+++G   N +TY+ LIDG+ K   ++ A  + +
Sbjct: 333 VVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVD 392

Query: 122 EMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG 181
            M      P+I++++ILI+G CK   +++ L  F       ++ + VTY  L++G+C++G
Sbjct: 393 LMISKGCDPDIMTFNILINGYCKANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQSG 452

Query: 182 RPTEAMQLYDSMLRNGIMPD 201
           +   A +L+  M+   + PD
Sbjct: 453 KLEVAKKLFQEMVSRRVRPD 472

Arabidopsis thaliana (taxid: 3702)

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

 Score =  148 bits (374), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 81/252 (32%), Positives = 135/252 (53%), Gaps = 35/252 (13%)

Query: 1   MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
           + +KE  L  A +L+ ++  RG+ PD ITYN++I G+C  N L EA Q+F+ +     +P
Sbjct: 324 VFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEP 383

Query: 61  NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY 120
           + +T++ILI+++CK  R+DD   +F ++  KG   N +TY+ L+ G+ +S  + +A +++
Sbjct: 384 DIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELF 443

Query: 121 EEMCENNISPNIVSYSILIDGLCKRGLMEEAL---------------------------- 152
           +EM    + P++V+Y IL+DGLC  G + +AL                            
Sbjct: 444 QEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNA 503

Query: 153 ------YAFHCAL-DNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLL 205
                 ++  C+L D  + PDVVTY ++I G CK G  +EA  L+  M  +G  PD    
Sbjct: 504 SKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTY 563

Query: 206 STLADYNLQSSG 217
           + L   +L  SG
Sbjct: 564 NILIRAHLGGSG 575

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	223
224135613	854	predicted protein [Populus trichocarpa]	0.982	0.256	0.663	3e-81
225427506	1131	PREDICTED: putative pentatricopeptide re	0.811	0.160	0.629	2e-77
296088470	822	unnamed protein product [Vitis vinifera]	0.825	0.223	0.621	2e-77
334182978	811	pentatricopeptide (PPR) repeat-containin	0.986	0.271	0.555	2e-63
240254191	840	pentatricopeptide (PPR) repeat-containin	0.986	0.261	0.555	2e-63
224130786	599	predicted protein [Populus trichocarpa]	0.896	0.333	0.406	1e-41
224130828	617	predicted protein [Populus trichocarpa]	0.896	0.324	0.397	1e-40
357499681	543	Pentatricopeptide repeat-containing prot	0.919	0.377	0.376	8e-40
357499975	590	Pentatricopeptide repeat-containing prot	0.865	0.327	0.386	7e-39
357499959	652	Pentatricopeptide repeat-containing prot	0.892	0.305	0.380	7e-39

>gi|224135613|ref|XP_002322117.1| predicted protein [Populus trichocarpa] gi|222869113|gb|EEF06244.1| predicted protein [Populus trichocarpa]

 Score =  306 bits (785), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 146/220 (66%), Positives = 177/220 (80%), Gaps = 1/220 (0%)

Query: 4   KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI 63
           +E HL+AAL LF  + +RG +PD+ T+NT+IC YC+  RLD+AVQLF K+T  QL+PN+I
Sbjct: 634 REGHLEAALGLFVHVVERGPKPDVFTFNTMICCYCNFKRLDDAVQLFAKMTSEQLRPNAI 693

Query: 64  TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN-MKSAFDVYEE 122
           TFTILIDAFC+EGRMDDA +MFSKMLE+GP+ N+VTYSCLI GYFKSQ+ M+S   +Y E
Sbjct: 694 TFTILIDAFCREGRMDDAMLMFSKMLEEGPEPNLVTYSCLIHGYFKSQSMMESGLKLYNE 753

Query: 123 MCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR 182
           M ENNI+PNIVSYSILIDGLCKRGLM+EA  AF CALD HLLPDV+ Y ILIRGYCK GR
Sbjct: 754 MLENNIAPNIVSYSILIDGLCKRGLMKEASCAFRCALDKHLLPDVIAYTILIRGYCKVGR 813

Query: 183 PTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHC 222
            TEAM LYD+ML N + PD  L  TL +Y L+ +G++  C
Sbjct: 814 LTEAMMLYDNMLLNRLTPDRFLERTLEEYQLKKAGAKHLC 853

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225427506|ref|XP_002263778.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g31840-like [Vitis vinifera]

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 136/216 (62%), Positives = 170/216 (78%)

Query: 1   MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
           M  +E  ++  L+L  ++   GLEPDI+TYNT+ICGYCSL    +A++LFE L C + +P
Sbjct: 599 MFFREGCVENVLELLREIIKYGLEPDIVTYNTMICGYCSLKIFSKAIKLFEVLKCGRTQP 658

Query: 61  NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY 120
           N+ITFTILIDA+CK+GRMDDA ++FS MLE+GP+ N++TYSCLIDGYFK++N +SAF++Y
Sbjct: 659 NAITFTILIDAYCKDGRMDDAMLIFSSMLERGPEPNILTYSCLIDGYFKTENTESAFELY 718

Query: 121 EEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA 180
           E+M  + +SPNIVSYSILIDGLCK+GLMEEA  AF CA+  HLLPDV+ Y ILIRGYCK 
Sbjct: 719 EKMLGDRVSPNIVSYSILIDGLCKKGLMEEASLAFQCAIGRHLLPDVIAYGILIRGYCKV 778

Query: 181 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSS 216
           GR  EAM LYD ML NGIMPD LL   LA+Y  Q S
Sbjct: 779 GRLAEAMMLYDHMLVNGIMPDDLLQKALAEYGFQDS 814

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296088470|emb|CBI37461.3| unnamed protein product [Vitis vinifera]

 Score =  294 bits (752), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 136/219 (62%), Positives = 172/219 (78%)

Query: 1   MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
           M  +E  ++  L+L  ++   GLEPDI+TYNT+ICGYCSL    +A++LFE L C + +P
Sbjct: 599 MFFREGCVENVLELLREIIKYGLEPDIVTYNTMICGYCSLKIFSKAIKLFEVLKCGRTQP 658

Query: 61  NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY 120
           N+ITFTILIDA+CK+GRMDDA ++FS MLE+GP+ N++TYSCLIDGYFK++N +SAF++Y
Sbjct: 659 NAITFTILIDAYCKDGRMDDAMLIFSSMLERGPEPNILTYSCLIDGYFKTENTESAFELY 718

Query: 121 EEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA 180
           E+M  + +SPNIVSYSILIDGLCK+GLMEEA  AF CA+  HLLPDV+ Y ILIRGYCK 
Sbjct: 719 EKMLGDRVSPNIVSYSILIDGLCKKGLMEEASLAFQCAIGRHLLPDVIAYGILIRGYCKV 778

Query: 181 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQ 219
           GR  EAM LYD ML NGIMPD LL   LA+Y  Q S ++
Sbjct: 779 GRLAEAMMLYDHMLVNGIMPDDLLQKALAEYGFQDSQAK 817

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334182978|ref|NP_001185123.1| pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] gi|332193283|gb|AEE31404.1| pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana]

 Score =  248 bits (632), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 125/225 (55%), Positives = 154/225 (68%), Gaps = 5/225 (2%)

Query: 2   LIKECH-LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
           L+ +CH ++ A K F  L +  +EPDI+TYNT+ICGYCSL RLDEA ++FE L      P
Sbjct: 581 LLFKCHRIEDASKFFNNLIEGKMEPDIVTYNTMICGYCSLRRLDEAERIFELLKVTPFGP 640

Query: 61  NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY 120
           N++T TILI   CK   MD A  MFS M EKG K N VTY CL+D + KS +++ +F ++
Sbjct: 641 NTVTLTILIHVLCKNNDMDGAIRMFSIMAEKGSKPNAVTYGCLMDWFSKSVDIEGSFKLF 700

Query: 121 EEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA 180
           EEM E  ISP+IVSYSI+IDGLCKRG ++EA   FH A+D  LLPDVV YAILIRGYCK 
Sbjct: 701 EEMQEKGISPSIVSYSIIIDGLCKRGRVDEATNIFHQAIDAKLLPDVVAYAILIRGYCKV 760

Query: 181 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN----LQSSGSQEH 221
           GR  EA  LY+ MLRNG+ PD LL   L++YN    L S G   H
Sbjct: 761 GRLVEAALLYEHMLRNGVKPDDLLQRALSEYNPPKWLMSKGVWVH 805

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|240254191|ref|NP_174467.4| pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] gi|357528959|sp|Q9C6S6.2|PPR67_ARATH RecName: Full=Putative pentatricopeptide repeat-containing protein At1g31840 gi|332193282|gb|AEE31403.1| pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana]

 Score =  247 bits (631), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 125/225 (55%), Positives = 154/225 (68%), Gaps = 5/225 (2%)

Query: 2   LIKECH-LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
           L+ +CH ++ A K F  L +  +EPDI+TYNT+ICGYCSL RLDEA ++FE L      P
Sbjct: 610 LLFKCHRIEDASKFFNNLIEGKMEPDIVTYNTMICGYCSLRRLDEAERIFELLKVTPFGP 669

Query: 61  NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY 120
           N++T TILI   CK   MD A  MFS M EKG K N VTY CL+D + KS +++ +F ++
Sbjct: 670 NTVTLTILIHVLCKNNDMDGAIRMFSIMAEKGSKPNAVTYGCLMDWFSKSVDIEGSFKLF 729

Query: 121 EEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA 180
           EEM E  ISP+IVSYSI+IDGLCKRG ++EA   FH A+D  LLPDVV YAILIRGYCK 
Sbjct: 730 EEMQEKGISPSIVSYSIIIDGLCKRGRVDEATNIFHQAIDAKLLPDVVAYAILIRGYCKV 789

Query: 181 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN----LQSSGSQEH 221
           GR  EA  LY+ MLRNG+ PD LL   L++YN    L S G   H
Sbjct: 790 GRLVEAALLYEHMLRNGVKPDDLLQRALSEYNPPKWLMSKGVWVH 834

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130786|ref|XP_002328376.1| predicted protein [Populus trichocarpa] gi|222838091|gb|EEE76456.1| predicted protein [Populus trichocarpa]

 Score =  175 bits (444), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 85/209 (40%), Positives = 131/209 (62%)

Query: 2   LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN 61
           L K+  ++ A+ L  ++ DRG+ PD++TY+TI+ G+CSL  L+EA  LF ++    + PN
Sbjct: 242 LCKDTLVNDAMDLLSEMVDRGIPPDVVTYSTILHGFCSLGHLNEATILFNEMVGRNVMPN 301

Query: 62  SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYE 121
           ++TFTIL+D  CKEG + +A  +F  M +KG + N  TY+ L+DGY  +  M  A  V +
Sbjct: 302 TVTFTILVDGLCKEGMVSEARCVFEAMTKKGAEPNAYTYNALMDGYCLNNQMDEAQKVLD 361

Query: 122 EMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG 181
            M +   +P + SY+ILI+G CKR  ++EA        +  L PD VTY+ L++G C+ G
Sbjct: 362 IMVDKGCAPVVHSYNILINGYCKRRRLDEAKSLLVEMSEKELTPDTVTYSTLMQGLCQVG 421

Query: 182 RPTEAMQLYDSMLRNGIMPDGLLLSTLAD 210
           RP EA+ L+  M  +G++PD +  STL D
Sbjct: 422 RPQEALNLFKEMCSSGLLPDLMTYSTLLD 450

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130828|ref|XP_002328386.1| predicted protein [Populus trichocarpa] gi|222838101|gb|EEE76466.1| predicted protein [Populus trichocarpa]

 Score =  172 bits (435), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 83/209 (39%), Positives = 128/209 (61%)

Query: 2   LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN 61
           L K+  ++ A++   ++ DRG+ PD++TYNTI+ G+CSL +L+EA +LF+++    + P+
Sbjct: 246 LCKDRLVNEAVEFLSEMVDRGIPPDVVTYNTILHGFCSLGQLNEATRLFKEMVGRNVMPD 305

Query: 62  SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYE 121
           ++TF IL+D  CKEG + +A  +   M EKG + N  TY+ L+DGY     M  A  V  
Sbjct: 306 TVTFNILVDGLCKEGMVSEARCVSETMTEKGAEPNAYTYNALMDGYCLHNQMDEAIKVLG 365

Query: 122 EMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG 181
            M     +PN+ SY+ILI+G CK   M EA        + +L PD VTY+ L++G C+ G
Sbjct: 366 IMIGKGCAPNLSSYNILINGYCKSKRMNEAKRLLSEMSEKNLTPDTVTYSTLMQGLCQVG 425

Query: 182 RPTEAMQLYDSMLRNGIMPDGLLLSTLAD 210
           RP EA+ L+  M  +G++PD +  S L D
Sbjct: 426 RPREALNLFKEMCSSGLLPDLMAYSILLD 454

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357499681|ref|XP_003620129.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355495144|gb|AES76347.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  169 bits (428), Expect = 8e-40,   Method: Compositional matrix adjust.
 Identities = 78/207 (37%), Positives = 131/207 (63%)

Query: 4   KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI 63
           K+ H++ A  L+ ++  +G+ P+++TY+ +I G+ ++ +L +A+ LF K+    +KP+  
Sbjct: 209 KDKHVNDAFDLYSEMVSKGISPNVVTYSALISGFFTVGQLKDAIDLFNKMILENIKPDVY 268

Query: 64  TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM 123
           TF IL+D FCK+G+M +   +F+ M+++G K NVVTY  L+DGY   + +  A  +   M
Sbjct: 269 TFNILVDGFCKDGKMKEGKTVFAMMMKQGIKPNVVTYCSLMDGYCLVKEVNKAKSILYTM 328

Query: 124 CENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRP 183
            +  ++P+I SY+ILIDG CK   ++EA+  F      H++PDVVTY  LI G CK G+ 
Sbjct: 329 SQRGVNPDIQSYNILIDGFCKIKKVDEAMNLFKEMHHKHIIPDVVTYNSLIDGLCKLGKI 388

Query: 184 TEAMQLYDSMLRNGIMPDGLLLSTLAD 210
           + A++L D M   G+ PD +  S++ D
Sbjct: 389 SYALKLVDEMHDRGVPPDIITYSSILD 415

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357499975|ref|XP_003620276.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355495291|gb|AES76494.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  166 bits (420), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 75/194 (38%), Positives = 124/194 (63%)

Query: 8   LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI 67
           ++ A  LF ++  +G+ PD++TY+ +I G+C L +L +A+ LF K+    +KP+  TF I
Sbjct: 241 VNEAFDLFSEMVSKGISPDVVTYSALISGFCILGKLKDAIDLFNKMILENIKPDVYTFNI 300

Query: 68  LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN 127
           L++AFCK+G+M +   +F  M+++G K N VTY+ L+DGY   + +  A  ++  M +  
Sbjct: 301 LVNAFCKDGKMKEGKTVFDMMMKQGIKPNFVTYNSLMDGYCLVKEVNKAKSIFNTMAQGG 360

Query: 128 ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAM 187
           ++P+I SYSI+I+G CK    +EA+  F      +++PDVVTY+ LI G  K+GR + A+
Sbjct: 361 VNPDIQSYSIMINGFCKIKKFDEAMNLFKEMHRKNIIPDVVTYSSLIDGLSKSGRISYAL 420

Query: 188 QLYDSMLRNGIMPD 201
           QL D M   G+ P+
Sbjct: 421 QLVDQMHDRGVPPN 434

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357499959|ref|XP_003620268.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355495283|gb|AES76486.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  166 bits (419), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 78/205 (38%), Positives = 128/205 (62%), Gaps = 6/205 (2%)

Query: 8   LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI 67
           ++ A  LF ++  +G+ PD++TY+ +I G+C L +L++A+ LF K+    +KP+  TF I
Sbjct: 241 VNEAFDLFSEMISKGISPDVVTYSALISGFCILGKLNDAIDLFNKMILENIKPDVYTFNI 300

Query: 68  LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN 127
           L++AFCK+G+M +   +F  M+++G K N VTY+ L+DGY   + +  A  ++  M +  
Sbjct: 301 LVNAFCKDGKMKEGKTVFDMMMKQGIKPNFVTYNSLMDGYCLVKEVNKAKSIFNTMAQGG 360

Query: 128 ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAM 187
           ++P+I SYSI+I+G CK    +EA+  F      +++PDVVTY+ LI G  K+GR + A+
Sbjct: 361 VNPDIQSYSIMINGFCKIKKFDEAMNLFKEMHRKNIIPDVVTYSSLIDGLSKSGRISYAL 420

Query: 188 QLYDSMLRNGIMPDGLLLSTLADYN 212
           QL D M   G+ P      T+  YN
Sbjct: 421 QLVDQMHDRGVPP------TIRTYN 439

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	223
TAIR|locus:2034528	840	AT1G31840 [Arabidopsis thalian	0.986	0.261	0.555	9e-61
TAIR|locus:2031301	577	AT1G63400 [Arabidopsis thalian	0.923	0.357	0.368	9.9e-39
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.923	0.327	0.368	1.3e-37
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.923	0.326	0.373	2.8e-37
TAIR|locus:2015228	614	AT1G63080 [Arabidopsis thalian	0.919	0.333	0.365	8.5e-37
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.973	0.344	0.348	1.7e-36
TAIR|locus:2174165	504	AT5G16640 [Arabidopsis thalian	0.892	0.394	0.356	1.3e-34
TAIR|locus:2203916	634	AT1G62590 [Arabidopsis thalian	0.923	0.324	0.349	2.4e-34
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.991	0.343	0.324	4.2e-34
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.955	0.344	0.344	9.6e-34

TAIR|locus:2034528 AT1G31840 [Arabidopsis thaliana (taxid:3702)]

 Score = 622 (224.0 bits), Expect = 9.0e-61, P = 9.0e-61
 Identities = 125/225 (55%), Positives = 154/225 (68%)

Query:     2 LIKECH-LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
             L+ +CH ++ A K F  L +  +EPDI+TYNT+ICGYCSL RLDEA ++FE L      P
Sbjct:   610 LLFKCHRIEDASKFFNNLIEGKMEPDIVTYNTMICGYCSLRRLDEAERIFELLKVTPFGP 669

Query:    61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY 120
             N++T TILI   CK   MD A  MFS M EKG K N VTY CL+D + KS +++ +F ++
Sbjct:   670 NTVTLTILIHVLCKNNDMDGAIRMFSIMAEKGSKPNAVTYGCLMDWFSKSVDIEGSFKLF 729

Query:   121 EEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA 180
             EEM E  ISP+IVSYSI+IDGLCKRG ++EA   FH A+D  LLPDVV YAILIRGYCK 
Sbjct:   730 EEMQEKGISPSIVSYSIIIDGLCKRGRVDEATNIFHQAIDAKLLPDVVAYAILIRGYCKV 789

Query:   181 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN----LQSSGSQEH 221
             GR  EA  LY+ MLRNG+ PD LL   L++YN    L S G   H
Sbjct:   790 GRLVEAALLYEHMLRNGVKPDDLLQRALSEYNPPKWLMSKGVWVH 834

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 414 (150.8 bits), Expect = 9.9e-39, P = 9.9e-39
 Identities = 76/206 (36%), Positives = 130/206 (63%)

Query:     3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS 62
             +KE  L  A KL+ ++  R ++PDI TY+++I G+C  +RLDEA  +FE +      PN 
Sbjct:   341 VKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNV 400

Query:    63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE 122
             +T+  LI+ FCK  R+D+   +F +M ++G   N VTY+ LI G+F++++  +A  V+++
Sbjct:   401 VTYNTLINGFCKAKRIDEGVELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQ 460

Query:   123 MCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR 182
             M  + + PNI++Y+ L+DGLCK G +E+A+  F     + + P + TY I+I G CKAG+
Sbjct:   461 MVSDGVHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGK 520

Query:   183 PTEAMQLYDSMLRNGIMPDGLLLSTL 208
               +   L+ S+   G+ PD ++ +T+
Sbjct:   521 VEDGWDLFCSLSLKGVKPDVIIYNTM 546

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 407 (148.3 bits), Expect = 1.3e-37, P = 1.3e-37
 Identities = 76/206 (36%), Positives = 128/206 (62%)

Query:     3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS 62
             +KE  L  A KL+ ++  R ++PDI TY+++I G+C  +RLDEA  +FE +      PN 
Sbjct:   336 VKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNV 395

Query:    63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE 122
             +T+  LI  FCK  R+++   +F +M ++G   N VTY+ LI G F++ +   A  ++++
Sbjct:   396 VTYNTLIKGFCKAKRVEEGMELFREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKK 455

Query:   123 MCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR 182
             M  + + P+I++YSIL+DGLCK G +E+AL  F     + + PD+ TY I+I G CKAG+
Sbjct:   456 MVSDGVPPDIITYSILLDGLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGK 515

Query:   183 PTEAMQLYDSMLRNGIMPDGLLLSTL 208
               +   L+ S+   G+ P+ ++ +T+
Sbjct:   516 VEDGWDLFCSLSLKGVKPNVIIYTTM 541

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

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

 Score = 404 (147.3 bits), Expect = 2.8e-37, P = 2.8e-37
 Identities = 77/206 (37%), Positives = 127/206 (61%)

Query:     3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS 62
             +KE  L  A KL+ ++  R ++PDI TY+++I G+C  +RLDEA  +FE +      PN 
Sbjct:   337 VKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNV 396

Query:    63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE 122
             +T+  LI  FCK  R+D+   +F +M ++G   N VTY+ LI G+F+++   +A  V+++
Sbjct:   397 VTYNTLIKGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQ 456

Query:   123 MCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR 182
             M  + + P+I++YSIL+DGLC  G +E AL  F     + + PD+ TY I+I G CKAG+
Sbjct:   457 MVSDGVLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGK 516

Query:   183 PTEAMQLYDSMLRNGIMPDGLLLSTL 208
               +   L+ S+   G+ P+ +  +T+
Sbjct:   517 VEDGWDLFCSLSLKGVKPNVVTYTTM 542

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015228 AT1G63080 [Arabidopsis thaliana (taxid:3702)]

 Score = 399 (145.5 bits), Expect = 8.5e-37, P = 8.5e-37
 Identities = 75/205 (36%), Positives = 125/205 (60%)

Query:     4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI 63
             KE  L  A KLF ++  R ++P+I+TYN++I G+C  +RLDEA Q+F  +      P+ +
Sbjct:   322 KEGKLIEAEKLFDEMIQRSIDPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVV 381

Query:    64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM 123
             T+  LI+ FCK  ++ D   +F  M  +G   N VTY+ LI G+F++ +  +A  V+++M
Sbjct:   382 TYNTLINGFCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQM 441

Query:   124 CENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRP 183
               + + PNI++Y+ L+DGLCK G +E+A+  F     + + PD+ TY I+  G CKAG+ 
Sbjct:   442 VSDGVHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKV 501

Query:   184 TEAMQLYDSMLRNGIMPDGLLLSTL 208
              +   L+ S+   G+ PD +  +T+
Sbjct:   502 EDGWDLFCSLSLKGVKPDVIAYNTM 526

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 397 (144.8 bits), Expect = 1.7e-36, P = 1.7e-36
 Identities = 76/218 (34%), Positives = 131/218 (60%)

Query:     3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS 62
             +KE  L  A KL+ ++  R ++P I+TY+++I G+C  +RLDEA Q+FE +      P+ 
Sbjct:   337 VKEGKLVEAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDV 396

Query:    63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE 122
             +T+  LI  FCK  R+++   +F +M ++G   N VTY+ LI G F++ +   A ++++E
Sbjct:   397 VTYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKE 456

Query:   123 MCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR 182
             M  + + PNI++Y+ L+DGLCK G +E+A+  F     + + P + TY I+I G CKAG+
Sbjct:   457 MVSDGVPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGK 516

Query:   183 PTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQE 220
               +   L+ ++   G+ PD +  +T+        GS+E
Sbjct:   517 VEDGWDLFCNLSLKGVKPDVVAYNTMIS-GFCRKGSKE 553

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

GO:0003723 "RNA binding" evidence=IDA

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

 Score = 375 (137.1 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 71/199 (35%), Positives = 120/199 (60%)

Query:     3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS 62
             +KE  +  A + + ++  R L+PDI+TY+ +I G C  +RLDEA ++F  +      P+ 
Sbjct:   267 VKEGRVSEAEEFYEEMIRRSLDPDIVTYSLLIYGLCMYSRLDEAEEMFGFMVSKGCFPDV 326

Query:    63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE 122
             +T++ILI+ +CK  +++    +F +M ++G   N VTY+ LI GY ++  +  A +++  
Sbjct:   327 VTYSILINGYCKSKKVEHGMKLFCEMSQRGVVRNTVTYTILIQGYCRAGKLNVAEEIFRR 386

Query:   123 MCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR 182
             M    + PNI++Y++L+ GLC  G +E+AL        N +  D+VTY I+IRG CKAG 
Sbjct:   387 MVFCGVHPNIITYNVLLHGLCDNGKIEKALVILADMQKNGMDADIVTYNIIIRGMCKAGE 446

Query:   183 PTEAMQLYDSMLRNGIMPD 201
               +A  +Y S+   G+MPD
Sbjct:   447 VADAWDIYCSLNCQGLMPD 465

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2203916 AT1G62590 [Arabidopsis thaliana (taxid:3702)]

 Score = 378 (138.1 bits), Expect = 2.4e-34, P = 2.4e-34
 Identities = 72/206 (34%), Positives = 121/206 (58%)

Query:     3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS 62
             +KE     A KL+  +  R ++PDI TYN+++ G+C  +RLD+A Q+FE +      P+ 
Sbjct:   341 VKEGKFVEAEKLYDDMIKRSIDPDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDV 400

Query:    63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE 122
             +T+  LI  FCK  R++D T +F +M  +G   + VTY+ LI G F   +  +A  V+++
Sbjct:   401 VTYNTLIKGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQ 460

Query:   123 MCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR 182
             M  + + P+I++YSIL+DGLC  G +E+AL  F     + +  D+  Y  +I G CKAG+
Sbjct:   461 MVSDGVPPDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGK 520

Query:   183 PTEAMQLYDSMLRNGIMPDGLLLSTL 208
               +   L+ S+   G+ P+ +  +T+
Sbjct:   521 VDDGWDLFCSLSLKGVKPNVVTYNTM 546

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 376 (137.4 bits), Expect = 4.2e-34, P = 4.2e-34
 Identities = 72/222 (32%), Positives = 129/222 (58%)

Query:     2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN 61
             L K+  LD A  LF ++  +G + DIITYNT+I G+C+  R D+  +L   +   ++ PN
Sbjct:   273 LCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMIKRKISPN 332

Query:    62 SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYE 121
              +TF++LID+F KEG++ +A  +  +M+++G   N +TY+ LIDG+ K   ++ A  + +
Sbjct:   333 VVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVD 392

Query:   122 EMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG 181
              M      P+I++++ILI+G CK   +++ L  F       ++ + VTY  L++G+C++G
Sbjct:   393 LMISKGCDPDIMTFNILINGYCKANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQSG 452

Query:   182 RPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHCI 223
             +   A +L+  M+   + PD +    L D  L  +G  E  +
Sbjct:   453 KLEVAKKLFQEMVSRRVRPDIVSYKILLD-GLCDNGELEKAL 493

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 372 (136.0 bits), Expect = 9.6e-34, P = 9.6e-34
 Identities = 74/215 (34%), Positives = 128/215 (59%)

Query:     4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI 63
             KE  L  A ++F  +  +G EPDI+TY+ +I  YC   R+D+ ++LF +++   L PN+I
Sbjct:   362 KENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTI 421

Query:    64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM 123
             T+  L+  FC+ G+++ A  +F +M+ +G   +VVTY  L+DG   +  +  A +++E+M
Sbjct:   422 TYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKM 481

Query:   124 CENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL-DNHLLPDVVTYAILIRGYCKAGR 182
              ++ ++  I  Y+I+I G+C    +++A ++  C+L D  + PDVVTY ++I G CK G 
Sbjct:   482 QKSRMTLGIGIYNIIIHGMCNASKVDDA-WSLFCSLSDKGVKPDVVTYNVMIGGLCKKGS 540

Query:   183 PTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSG 217
              +EA  L+  M  +G  PD    + L   +L  SG
Sbjct:   541 LSEADMLFRKMKEDGCTPDDFTYNILIRAHLGGSG 575

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_LG_XV000390 hypothetical protein (854 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	223
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-19
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-17
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-17
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-15
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-15
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-14
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-13
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-12
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-12
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-10
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-10
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-10
pfam12854	34	pfam12854, PPR_1, PPR repeat	8e-10
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-09
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-09
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-07
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	3e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-07
pfam01535	31	pfam01535, PPR, PPR repeat	6e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-06
pfam01535	31	pfam01535, PPR, PPR repeat	2e-06
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	2e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	2e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	4e-04
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.003
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.004

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

 Score = 78.2 bits (194), Expect = 1e-19
 Identities = 26/49 (53%), Positives = 35/49 (71%)

Query: 96  NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK 144
           +VVTY+ LIDGY K   ++ A  ++ EM +  I PN+ +YSILIDGLCK
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 72.1 bits (178), Expect = 4e-17
 Identities = 24/50 (48%), Positives = 37/50 (74%)

Query: 25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK 74
          PD++TYNT+I GYC   +++EA++LF ++    +KPN  T++ILID  CK
Sbjct: 1  PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 78.8 bits (194), Expect = 5e-17
 Identities = 53/216 (24%), Positives = 95/216 (43%), Gaps = 6/216 (2%)

Query: 1   MLIKEC----HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV 56
           ML+  C     +D AL++   + + GL+ D   Y T+I       ++D   ++F ++   
Sbjct: 442 MLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNA 501

Query: 57  QLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSA 116
            ++ N  TF  LID   + G++  A   +  M  K  K + V ++ LI    +S  +  A
Sbjct: 502 GVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRA 561

Query: 117 FDVYEEMCENN--ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILI 174
           FDV  EM      I P+ ++   L+      G ++ A   +    + ++      Y I +
Sbjct: 562 FDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAV 621

Query: 175 RGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLAD 210
               + G    A+ +YD M + G+ PD +  S L D
Sbjct: 622 NSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVD 657

Length = 1060

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

 Score = 78.0 bits (192), Expect = 1e-16
 Identities = 47/178 (26%), Positives = 85/178 (47%), Gaps = 2/178 (1%)

Query: 23  LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT 82
             P + T+N ++    S   +D A+++   +    LK +   +T LI    K G++D   
Sbjct: 433 RNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMF 492

Query: 83  MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL 142
            +F +M+  G +ANV T+  LIDG  ++  +  AF  Y  M   N+ P+ V ++ LI   
Sbjct: 493 EVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISAC 552

Query: 143 CKRGLMEEA--LYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGI 198
            + G ++ A  + A   A  + + PD +T   L++    AG+   A ++Y  +    I
Sbjct: 553 GQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNI 610

Length = 1060

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

 Score = 67.8 bits (167), Expect = 1e-15
 Identities = 23/50 (46%), Positives = 37/50 (74%)

Query: 60  PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK 109
           P+ +T+  LID +CK+G++++A  +F++M ++G K NV TYS LIDG  K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 74.9 bits (184), Expect = 1e-15
 Identities = 51/213 (23%), Positives = 98/213 (46%), Gaps = 6/213 (2%)

Query: 2   LIKECHLDAAL-KLFGQLTDRGLE-----PDIITYNTIICGYCSLNRLDEAVQLFEKLTC 55
           LI  C    A+ + F  L +   E     PD IT   ++    +  ++D A ++++ +  
Sbjct: 548 LISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHE 607

Query: 56  VQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKS 115
             +K     +TI +++  ++G  D A  ++  M +KG K + V +S L+D    + ++  
Sbjct: 608 YNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK 667

Query: 116 AFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIR 175
           AF++ ++  +  I    VSYS L+         ++AL  +       L P V T   LI 
Sbjct: 668 AFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALIT 727

Query: 176 GYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTL 208
             C+  +  +A+++   M R G+ P+ +  S L
Sbjct: 728 ALCEGNQLPKALEVLSEMKRLGLCPNTITYSIL 760

Length = 1060

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

 Score = 71.4 bits (175), Expect = 2e-14
 Identities = 34/138 (24%), Positives = 68/138 (49%), Gaps = 1/138 (0%)

Query: 8   LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI 67
           LD A ++      +G++   ++Y++++    +     +A++L+E +  ++L+P   T   
Sbjct: 665 LDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNA 724

Query: 68  LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN 127
           LI A C+  ++  A  + S+M   G   N +TYS L+    +  +     D+  +  E+ 
Sbjct: 725 LITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDG 784

Query: 128 ISPNIVSYSILIDGLCKR 145
           I PN+V    +  GLC R
Sbjct: 785 IKPNLVMCRCIT-GLCLR 801

Length = 1060

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

 Score = 63.6 bits (156), Expect = 5e-14
 Identities = 25/50 (50%), Positives = 35/50 (70%)

Query: 130 PNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCK 179
           P++V+Y+ LIDG CK+G +EEAL  F+      + P+V TY+ILI G CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 66.8 bits (163), Expect = 6e-13
 Identities = 56/261 (21%), Positives = 101/261 (38%), Gaps = 82/261 (31%)

Query: 11  ALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLF-------------------- 50
           A +LF ++ +R    ++ ++ TII G        EA  LF                    
Sbjct: 177 ARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLR 232

Query: 51  -----------EKLTCVQLKP----NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKA 95
                      ++L C  LK     ++     LID + K G ++DA  +F  M    P+ 
Sbjct: 233 ASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM----PEK 288

Query: 96  NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS-------------------------- 129
             V ++ ++ GY      + A  +Y EM ++ +S                          
Sbjct: 289 TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAH 348

Query: 130 ---------PNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA 180
                     +IV+ + L+D   K G ME+A   F    D     +++++  LI GY   
Sbjct: 349 AGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVF----DRMPRKNLISWNALIAGYGNH 404

Query: 181 GRPTEAMQLYDSMLRNGIMPD 201
           GR T+A+++++ M+  G+ P+
Sbjct: 405 GRGTKAVEMFERMIAEGVAPN 425

Length = 697

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

 Score = 64.9 bits (158), Expect = 3e-12
 Identities = 49/204 (24%), Positives = 90/204 (44%), Gaps = 9/204 (4%)

Query: 7   HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFT 66
               A K+F ++  +    D +++  +I GY      D+A++ +  +    + P+ IT  
Sbjct: 338 SWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIA 393

Query: 67  ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN 126
            ++ A    G +D    +      KG  + VV  + LI+ Y K + +  A +V+  + E 
Sbjct: 394 SVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK 453

Query: 127 NISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEA 186
               +++S++ +I GL       EAL  F   L   L P+ VT    +    + G     
Sbjct: 454 ----DVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIGALMCG 508

Query: 187 MQLYDSMLRNGIMPDGLLLSTLAD 210
            +++  +LR GI  DG L + L D
Sbjct: 509 KEIHAHVLRTGIGFDGFLPNALLD 532

Length = 857

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

 Score = 63.7 bits (155), Expect = 7e-12
 Identities = 48/205 (23%), Positives = 94/205 (45%), Gaps = 6/205 (2%)

Query: 2   LIKEC----HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCV 56
           L+K C     +D A +++  + +  ++     Y TI    CS     D A+ +++ +   
Sbjct: 585 LMKACANAGQVDRAKEVYQMIHEYNIKGTPEVY-TIAVNSCSQKGDWDFALSIYDDMKKK 643

Query: 57  QLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSA 116
            +KP+ + F+ L+D     G +D A  +     ++G K   V+YS L+     ++N K A
Sbjct: 644 GVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKA 703

Query: 117 FDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRG 176
            ++YE++    + P + + + LI  LC+   + +AL          L P+ +TY+IL+  
Sbjct: 704 LELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVA 763

Query: 177 YCKAGRPTEAMQLYDSMLRNGIMPD 201
             +       + L      +GI P+
Sbjct: 764 SERKDDADVGLDLLSQAKEDGIKPN 788

Length = 1060

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

 Score = 57.8 bits (141), Expect = 9e-12
 Identities = 20/37 (54%), Positives = 27/37 (72%)

Query: 165 PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD 201
           PDVVTY  LI GYCK G+  EA++L++ M + GI P+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPN 37

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 = 63.0 bits (153), Expect = 1e-11
 Identities = 49/224 (21%), Positives = 94/224 (41%), Gaps = 48/224 (21%)

Query: 8   LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI 67
           ++ A  +F  +     E   + +N+++ GY      +EA+ L+ ++    +  +  TF+I
Sbjct: 275 IEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSI 330

Query: 68  LI-----------------------------------DAFCKEGRMDDATMMFSKMLEKG 92
           +I                                   D + K GRM+DA  +F +M    
Sbjct: 331 MIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM---- 386

Query: 93  PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEAL 152
           P+ N+++++ LI GY        A +++E M    ++PN V++  ++      GL E+  
Sbjct: 387 PRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGW 446

Query: 153 YAFHCALDNH-LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR 195
             F    +NH + P  + YA +I    + G   EA     +M+R
Sbjct: 447 EIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAY----AMIR 486

Length = 697

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

 Score = 54.7 bits (133), Expect = 1e-10
 Identities = 17/32 (53%), Positives = 26/32 (81%)

Query: 21 RGLEPDIITYNTIICGYCSLNRLDEAVQLFEK 52
          +GL+PD++TYNT+I G C   R+DEAV+L ++
Sbjct: 1  KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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

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

 Score = 59.9 bits (145), Expect = 2e-10
 Identities = 52/267 (19%), Positives = 108/267 (40%), Gaps = 74/267 (27%)

Query: 1   MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
           M ++   L  A  +FG++ +R    D+ ++N ++ GY      DEA+ L+ ++    ++P
Sbjct: 130 MFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRP 185

Query: 61  NSITF-----------------------------------TILIDAFCKEGRMDDATMMF 85
           +  TF                                     LI  + K G +  A ++F
Sbjct: 186 DVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVF 245

Query: 86  SKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDG---L 142
            +M    P+ + ++++ +I GYF++       +++  M E ++ P++++ + +I     L
Sbjct: 246 DRM----PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELL 301

Query: 143 CKRGLMEE-------ALYAFHCALDNHLLP---------------------DVVTYAILI 174
               L  E         +A   ++ N L+                      D V++  +I
Sbjct: 302 GDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMI 361

Query: 175 RGYCKAGRPTEAMQLYDSMLRNGIMPD 201
            GY K G P +A++ Y  M ++ + PD
Sbjct: 362 SGYEKNGLPDKALETYALMEQDNVSPD 388

Length = 857

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

 Score = 58.3 bits (141), Expect = 5e-10
 Identities = 42/198 (21%), Positives = 87/198 (43%), Gaps = 14/198 (7%)

Query: 11  ALKLFGQLTDRGLEPDIITYNTII--CGYCSLNRLDEAVQ-LFEKLTCVQ-----LKPNS 62
           A   +G +  + ++PD + +N +I  CG         AV   F+ L  ++     + P+ 
Sbjct: 526 AFGAYGIMRSKNVKPDRVVFNALISACGQSG------AVDRAFDVLAEMKAETHPIDPDH 579

Query: 63  ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE 122
           IT   L+ A    G++D A  ++  + E   K     Y+  ++   +  +   A  +Y++
Sbjct: 580 ITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDD 639

Query: 123 MCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR 182
           M +  + P+ V +S L+D     G +++A      A    +    V+Y+ L+     A  
Sbjct: 640 MKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN 699

Query: 183 PTEAMQLYDSMLRNGIMP 200
             +A++LY+ +    + P
Sbjct: 700 WKKALELYEDIKSIKLRP 717

Length = 1060

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

 Score = 57.9 bits (140), Expect = 6e-10
 Identities = 55/266 (20%), Positives = 101/266 (37%), Gaps = 86/266 (32%)

Query: 1   MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
           M +K   + +A  +F ++  R    D I++N +I GY       E ++LF  +  + + P
Sbjct: 231 MYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELSVDP 286

Query: 61  NSITFTILIDA---------------------------FCKE--------GRMDDATMMF 85
           + +T T +I A                            C          G   +A  +F
Sbjct: 287 DLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVF 346

Query: 86  SKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN-------------- 131
           S+M  K    + V+++ +I GY K+     A + Y  M ++N+SP+              
Sbjct: 347 SRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACL 402

Query: 132 -----------------IVSYSILIDGL------CKRGLMEEALYAFHCALDNHLLPDVV 168
                            ++SY ++ + L      CK   +++AL  FH   +     DV+
Sbjct: 403 GDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKC--IDKALEVFHNIPEK----DVI 456

Query: 169 TYAILIRGYCKAGRPTEAMQLYDSML 194
           ++  +I G     R  EA+  +  ML
Sbjct: 457 SWTSIIAGLRLNNRCFEALIFFRQML 482

Length = 857

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

 Score = 52.0 bits (126), Expect = 8e-10
 Identities = 13/31 (41%), Positives = 21/31 (67%)

Query: 58 LKPNSITFTILIDAFCKEGRMDDATMMFSKM 88
          LKP+ +T+  LID  C+ GR+D+A  +  +M
Sbjct: 3  LKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 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 = 50.4 bits (122), Expect = 3e-09
 Identities = 19/31 (61%), Positives = 22/31 (70%)

Query: 163 LLPDVVTYAILIRGYCKAGRPTEAMQLYDSM 193
           L PDVVTY  LI G C+AGR  EA++L D M
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 55.3 bits (133), Expect = 5e-09
 Identities = 40/201 (19%), Positives = 81/201 (40%), Gaps = 12/201 (5%)

Query: 10  AALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILI 69
               ++  +   G EPD    N ++  +     L +A +LF+++     + N  ++  +I
Sbjct: 141 CVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMP----ERNLASWGTII 196

Query: 70  DAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS 129
                 G   +A  +F +M E G  A   T+  ++       + ++   ++  + +  + 
Sbjct: 197 GGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVV 256

Query: 130 PNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPD--VVTYAILIRGYCKAGRPTEAM 187
            +      LID   K G +E+A   F        +P+   V +  ++ GY   G   EA+
Sbjct: 257 GDTFVSCALIDMYSKCGDIEDARCVFDG------MPEKTTVAWNSMLAGYALHGYSEEAL 310

Query: 188 QLYDSMLRNGIMPDGLLLSTL 208
            LY  M  +G+  D    S +
Sbjct: 311 CLYYEMRDSGVSIDQFTFSIM 331

Length = 697

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

 Score = 53.3 bits (128), Expect = 2e-08
 Identities = 46/182 (25%), Positives = 87/182 (47%), Gaps = 11/182 (6%)

Query: 24  EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM 83
           E D++++N ++ GY +  +   AV+LF ++    + P+ +TF  L+ A  + G +     
Sbjct: 551 EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLE 610

Query: 84  MFSKMLEK-GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL 142
            F  M EK     N+  Y+C++D   ++  +  A++   +M    I+P+   +  L++  
Sbjct: 611 YFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALLNA- 666

Query: 143 CK--RGLMEEALYAFHC-ALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIM 199
           C+  R +    L A H   LD +    V  Y +L   Y  AG+  E  ++  +M  NG+ 
Sbjct: 667 CRIHRHVELGELAAQHIFELDPN---SVGYYILLCNLYADAGKWDEVARVRKTMRENGLT 723

Query: 200 PD 201
            D
Sbjct: 724 VD 725

Length = 857

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

 Score = 47.8 bits (115), Expect = 3e-08
 Identities = 19/34 (55%), Positives = 22/34 (64%)

Query: 168 VTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD 201
           VTY  LI G CKAGR  EA++L+  M   GI PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 51.0 bits (122), Expect = 1e-07
 Identities = 33/172 (19%), Positives = 76/172 (44%), Gaps = 1/172 (0%)

Query: 8   LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI 67
            D AL ++  +  +G++PD + ++ ++        LD+A ++ +      +K  +++++ 
Sbjct: 630 WDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSS 689

Query: 68  LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN 127
           L+ A         A  ++  +     +  V T + LI    +   +  A +V  EM    
Sbjct: 690 LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLG 749

Query: 128 ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCK 179
           + PN ++YSIL+    ++   +  L     A ++ + P++V    +  G C 
Sbjct: 750 LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCL 800

Length = 1060

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

 Score = 45.9 bits (110), Expect = 2e-07
 Identities = 14/37 (37%), Positives = 25/37 (67%)

Query: 2  LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYC 38
            K+  ++ ALKLF ++  RG++P++ TY+ +I G C
Sbjct: 13 YCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 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|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 49.8 bits (117), Expect = 3e-07
 Identities = 42/199 (21%), Positives = 77/199 (38%), Gaps = 4/199 (2%)

Query: 1   MLIKECHLDAALKLFGQLTDRGLEP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK 59
            L+K   L+ AL+L  +  +  L P        +     +L + +EA++L EK   +   
Sbjct: 68  ALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPD 127

Query: 60  PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN--VVTYSCLIDGYFKSQNMKSAF 117
           P+     + + A  + G  ++A  ++ K LE  P+ N        L          + A 
Sbjct: 128 PDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEAL 187

Query: 118 DVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGY 177
           ++ E+  + N   +  +   L     K G  EEAL  +  AL+     +      L    
Sbjct: 188 ELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELD-PDNAEALYNLALLL 246

Query: 178 CKAGRPTEAMQLYDSMLRN 196
            + GR  EA++  +  L  
Sbjct: 247 LELGRYEEALEALEKALEL 265

Length = 291

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

 Score = 44.3 bits (106), Expect = 6e-07
 Identities = 12/27 (44%), Positives = 21/27 (77%)

Query: 126 NNISPNIVSYSILIDGLCKRGLMEEAL 152
             + P++V+Y+ LIDGLC+ G ++EA+
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAV 27

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 = 44.0 bits (105), Expect = 6e-07
 Identities = 16/31 (51%), Positives = 21/31 (67%)

Query: 168 VTYAILIRGYCKAGRPTEAMQLYDSMLRNGI 198
           VTY  LI GYCKAG+  EA++L+  M   G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 43.5 bits (104), Expect = 1e-06
 Identities = 14/33 (42%), Positives = 22/33 (66%)

Query: 91  KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM 123
           KG K +VVTY+ LIDG  ++  +  A ++ +EM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 43.6 bits (104), Expect = 1e-06
 Identities = 14/35 (40%), Positives = 24/35 (68%)

Query: 98  VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI 132
           VTY+ LIDG  K+  ++ A ++++EM E  I 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 = 42.8 bits (102), Expect = 2e-06
 Identities = 12/30 (40%), Positives = 21/30 (70%)

Query: 63 ITFTILIDAFCKEGRMDDATMMFSKMLEKG 92
          +T+  LI  +CK G++++A  +F +M EKG
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

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 = 42.6 bits (101), Expect = 2e-06
 Identities = 11/34 (32%), Positives = 18/34 (52%)

Query: 167 VVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMP 200
           + TY  L+    KAG P  A+ + + 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

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

 Score = 40.5 bits (96), Expect = 1e-05
 Identities = 14/35 (40%), Positives = 24/35 (68%)

Query: 63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANV 97
          +T+  LID  CK GR+++A  +F +M E+G + +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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 39.9 bits (94), Expect = 2e-05
 Identities = 10/34 (29%), Positives = 17/34 (50%)

Query: 97  VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP 130
           + TY+ L+    K+ +   A  V EEM  + + 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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 44.1 bits (104), Expect = 3e-05
 Identities = 33/146 (22%), Positives = 71/146 (48%), Gaps = 6/146 (4%)

Query: 31  NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM-MFSKML 89
           N+ +   CS  +L++A++L E +  +++  +   +  L    C+  R  +    + S+ L
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALF-RLCEWKRAVEEGSRVCSRAL 113

Query: 90  EKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLME 149
              P   V   + ++  + +   +  A+ V+ +M E ++     S+++L+ G  K G  +
Sbjct: 114 SSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDL----FSWNVLVGGYAKAGYFD 169

Query: 150 EALYAFHCALDNHLLPDVVTYAILIR 175
           EAL  +H  L   + PDV T+  ++R
Sbjct: 170 EALCLYHRMLWAGVRPDVYTFPCVLR 195

Length = 857

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

 Score = 38.2 bits (90), Expect = 1e-04
 Identities = 12/31 (38%), Positives = 21/31 (67%)

Query: 98  VTYSCLIDGYFKSQNMKSAFDVYEEMCENNI 128
           VTY+ LI GY K+  ++ A ++++EM E  +
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 = 37.4 bits (88), Expect = 2e-04
 Identities = 13/35 (37%), Positives = 25/35 (71%)

Query: 28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS 62
          +TYNT+I G C   R++EA++LF+++    ++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 = 36.7 bits (86), Expect = 4e-04
 Identities = 12/26 (46%), Positives = 22/26 (84%)

Query: 28 ITYNTIICGYCSLNRLDEAVQLFEKL 53
          +TYN++I GYC   +L+EA++LF+++
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEM 26

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

 Score = 37.9 bits (88), Expect = 0.003
 Identities = 17/82 (20%), Positives = 46/82 (56%), Gaps = 5/82 (6%)

Query: 9   DAALKLFGQLTDRGLEPDIITYNTII--CGYCSLNRLDEAVQLFEKLTCVQ-LKPNSITF 65
             A+++F ++   G+ P+ +T+  ++  C Y  L+  ++  ++F+ ++    +KP ++ +
Sbjct: 408 TKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLS--EQGWEIFQSMSENHRIKPRAMHY 465

Query: 66  TILIDAFCKEGRMDDATMMFSK 87
             +I+   +EG +D+A  M  +
Sbjct: 466 ACMIELLGREGLLDEAYAMIRR 487

Length = 697

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

 Score = 37.9 bits (88), Expect = 0.003
 Identities = 16/81 (19%), Positives = 41/81 (50%), Gaps = 1/81 (1%)

Query: 9   DAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTC-VQLKPNSITFTI 67
             A++LF ++ + G+ PD +T+ +++C       + + ++ F  +     + PN   +  
Sbjct: 571 SMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYAC 630

Query: 68  LIDAFCKEGRMDDATMMFSKM 88
           ++D   + G++ +A    +KM
Sbjct: 631 VVDLLGRAGKLTEAYNFINKM 651

Length = 857

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

 Score = 34.0 bits (79), Expect = 0.003
 Identities = 13/24 (54%), Positives = 16/24 (66%)

Query: 133 VSYSILIDGLCKRGLMEEALYAFH 156
           V+Y+ LI G CK G +EEAL  F 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFK 24

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 = 33.6 bits (78), Expect = 0.004
 Identities = 15/24 (62%), Positives = 18/24 (75%)

Query: 133 VSYSILIDGLCKRGLMEEALYAFH 156
           V+Y+ LIDGLCK G +EEAL  F 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFK 24

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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 33.7 bits (78), Expect = 0.004
 Identities = 9/29 (31%), Positives = 13/29 (44%)

Query: 64 TFTILIDAFCKEGRMDDATMMFSKMLEKG 92
          T+  L+ A  K G  D A  +  +M   G
Sbjct: 3  TYNALLLALAKAGDPDLALAVLEEMKASG 31

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	223
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	99.88
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.83
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.82
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.76
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.76
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.75
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.75
KOG1126	638	consensus DNA-binding cell division cycle control	99.75
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.74
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.74
PRK12370	553	invasion protein regulator; Provisional	99.72
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.72
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.71
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.7
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.68
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.68
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.67
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.66
PRK12370	553	invasion protein regulator; Provisional	99.66
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.65
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.65
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.64
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.64
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.62
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.61
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.61
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.61
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.61
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.6
KOG1126	638	consensus DNA-binding cell division cycle control	99.59
PF13041	50	PPR_2: PPR repeat family	99.57
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.55
PRK11189	296	lipoprotein NlpI; Provisional	99.54
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.54
KOG1129	478	consensus TPR repeat-containing protein [General f	99.53
PF13041	50	PPR_2: PPR repeat family	99.52
PRK14574	822	hmsH outer membrane protein; Provisional	99.51
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.47
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.47
PRK14574	822	hmsH outer membrane protein; Provisional	99.46
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.46
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.44
KOG2003	840	consensus TPR repeat-containing protein [General f	99.42
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.41
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.41
KOG2003	840	consensus TPR repeat-containing protein [General f	99.41
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.41
KOG1129	478	consensus TPR repeat-containing protein [General f	99.4
PRK11189	296	lipoprotein NlpI; Provisional	99.36
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.36
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.36
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.35
KOG1125	579	consensus TPR repeat-containing protein [General f	99.35
KOG2076	895	consensus RNA polymerase III transcription factor	99.34
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.33
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.31
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.3
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.28
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.28
PRK15359	144	type III secretion system chaperone protein SscB;	99.28
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	99.26
PRK15359	144	type III secretion system chaperone protein SscB;	99.26
PLN02789	320	farnesyltranstransferase	99.25
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.21
TIGR02552	135	LcrH_SycD type III secretion low calcium response	99.21
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.2
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	99.19
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.19
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.18
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.18
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.17
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.17
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	99.17
KOG2076	895	consensus RNA polymerase III transcription factor	99.16
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	99.15
TIGR02552	135	LcrH_SycD type III secretion low calcium response	99.14
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.13
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.12
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.11
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.11
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.1
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.09
PLN02789	320	farnesyltranstransferase	99.06
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.03
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.0
PF12854	34	PPR_1: PPR repeat	98.99
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.99
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.99
PF12854	34	PPR_1: PPR repeat	98.97
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.97
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.96
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.95
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.93
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.92
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.9
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.9
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.89
KOG1125	579	consensus TPR repeat-containing protein [General f	98.88
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.85
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.85
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.84
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.82
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.81
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.81
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.8
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.78
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.78
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.77
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.77
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.76
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.76
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.76
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.75
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.75
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.75
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.74
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.71
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.71
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.71
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.7
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.7
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.7
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.69
KOG0553	304	consensus TPR repeat-containing protein [General f	98.69
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.68
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.66
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.66
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.66
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.66
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.65
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.64
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.63
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.61
KOG0553	304	consensus TPR repeat-containing protein [General f	98.61
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.6
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.58
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.57
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.57
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.57
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.56
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.56
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.52
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.52
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.51
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.51
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.5
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.49
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.49
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.47
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.46
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.46
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.46
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.44
PRK04841	903	transcriptional regulator MalT; Provisional	98.43
PRK04841	903	transcriptional regulator MalT; Provisional	98.42
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.41
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.4
KOG2796	366	consensus Uncharacterized conserved protein [Funct	98.4
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.4
KOG2796	366	consensus Uncharacterized conserved protein [Funct	98.39
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.38
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.37
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.37
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.37
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.35
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.35
PF12688	120	TPR_5: Tetratrico peptide repeat	98.34
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.32
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.3
PF12688	120	TPR_5: Tetratrico peptide repeat	98.29
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.28
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.26
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.24
PRK15331	165	chaperone protein SicA; Provisional	98.22
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	98.21
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	98.19
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.19
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.19
PF03704	146	BTAD: Bacterial transcriptional activator domain;	98.16
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.14
PRK10803	263	tol-pal system protein YbgF; Provisional	98.14
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.13
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.11
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.1
PF03704	146	BTAD: Bacterial transcriptional activator domain;	98.09
PRK15331	165	chaperone protein SicA; Provisional	98.08
PF13371	73	TPR_9: Tetratricopeptide repeat	98.05
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	98.05
PRK10803	263	tol-pal system protein YbgF; Provisional	98.03
PF13371	73	TPR_9: Tetratricopeptide repeat	98.01
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.99
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.96
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.92
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.83
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.79
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.78
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.77
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.73
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.72
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.69
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.69
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.68
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.67
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.67
PRK11906	458	transcriptional regulator; Provisional	97.62
KOG2610	491	consensus Uncharacterized conserved protein [Funct	97.6
PF13512	142	TPR_18: Tetratricopeptide repeat	97.58
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.57
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.56
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	97.55
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.55
KOG2610	491	consensus Uncharacterized conserved protein [Funct	97.48
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.41
PF13428	44	TPR_14: Tetratricopeptide repeat	97.41
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.36
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	97.33
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.33
KOG1585	308	consensus Protein required for fusion of vesicles	97.32
KOG3941	406	consensus Intermediate in Toll signal transduction	97.29
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.29
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.29
PRK11906	458	transcriptional regulator; Provisional	97.27
COG0457	291	NrfG FOG: TPR repeat [General function prediction	97.21
COG3118	304	Thioredoxin domain-containing protein [Posttransla	97.16
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.14
PF13428	44	TPR_14: Tetratricopeptide repeat	97.08
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.08
KOG4555	175	consensus TPR repeat-containing protein [Function	97.06
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.06
smart00299	140	CLH Clathrin heavy chain repeat homology.	97.06
KOG4555	175	consensus TPR repeat-containing protein [Function	97.04
COG3629	280	DnrI DNA-binding transcriptional activator of the	97.02
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	96.86
KOG3941	406	consensus Intermediate in Toll signal transduction	96.84
PF13512	142	TPR_18: Tetratricopeptide repeat	96.83
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.83
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.8
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.76
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	96.76
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.74
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.73
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.71
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.69
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.69
PF13431	34	TPR_17: Tetratricopeptide repeat	96.53
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	96.48
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.48
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	96.46
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.43
PF13431	34	TPR_17: Tetratricopeptide repeat	96.4
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.39
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.39
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.37
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.37
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.23
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.21
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	96.18
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.16
KOG4570	418	consensus Uncharacterized conserved protein [Funct	96.1
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	96.08
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.07
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.95
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.94
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.92
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	95.9
KOG4234	271	consensus TPR repeat-containing protein [General f	95.9
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.81
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	95.75
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.72
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.63
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.6
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	95.59
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.59
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.57
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.56
KOG1550	552	consensus Extracellular protein SEL-1 and related	95.53
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.53
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.46
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.46
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	95.34
KOG4648	536	consensus Uncharacterized conserved protein, conta	95.33
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	95.31
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	95.3
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.22
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.17
PF13929	292	mRNA_stabil: mRNA stabilisation	95.07
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	94.99
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	94.91
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.8
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.75
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	94.75
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	94.7
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	94.67
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.6
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	94.49
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	94.4
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.39
KOG1585	308	consensus Protein required for fusion of vesicles	94.28
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	94.28
KOG4648	536	consensus Uncharacterized conserved protein, conta	94.25
KOG4234	271	consensus TPR repeat-containing protein [General f	94.09
COG3947	361	Response regulator containing CheY-like receiver a	94.07
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	94.05
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	93.94
COG1747	711	Uncharacterized N-terminal domain of the transcrip	93.89
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	93.62
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	93.58
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	93.49
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.46
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	93.42
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.36
COG4455	273	ImpE Protein of avirulence locus involved in tempe	93.34
KOG1586	288	consensus Protein required for fusion of vesicles	93.34
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.17
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	93.05
KOG1586	288	consensus Protein required for fusion of vesicles	93.04
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	92.75
KOG4507	886	consensus Uncharacterized conserved protein, conta	92.59
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.58
COG4455	273	ImpE Protein of avirulence locus involved in tempe	92.51
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	92.5
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	92.47
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.43
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	92.42
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	92.33
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	92.33
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	92.11
COG3947	361	Response regulator containing CheY-like receiver a	91.84
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.78
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	91.68
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	91.52
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	91.47
KOG2471	696	consensus TPR repeat-containing protein [General f	91.41
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	91.03
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	90.78
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	90.69
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	90.6
KOG4507	886	consensus Uncharacterized conserved protein, conta	90.56
PF13929	292	mRNA_stabil: mRNA stabilisation	90.3
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	90.25
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	90.22
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	90.1
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	90.1
PF09797	365	NatB_MDM20: N-acetyltransferase B complex (NatB) n	90.0
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	89.92
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	89.86
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	89.73
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	89.53
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	89.44
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	89.44
KOG1258	577	consensus mRNA processing protein [RNA processing	89.35
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	89.32
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	89.19
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.08
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	88.79
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	88.32
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	88.22
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	88.2
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	88.04
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	87.77
PRK10564	303	maltose regulon periplasmic protein; Provisional	87.75
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	87.58
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	87.45
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	87.24
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	87.2
PF13762	145	MNE1: Mitochondrial splicing apparatus component	86.47
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	86.24
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	85.98
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	85.91
PF09797	365	NatB_MDM20: N-acetyltransferase B complex (NatB) n	85.86
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	85.85
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	85.26
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	84.98
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	84.46
PRK10941	269	hypothetical protein; Provisional	84.25
PF09670	379	Cas_Cas02710: CRISPR-associated protein (Cas_Cas02	84.23
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	83.81
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	83.66
COG1747	711	Uncharacterized N-terminal domain of the transcrip	83.31
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	83.19
KOG2041	1189	consensus WD40 repeat protein [General function pr	82.96
PRK09687	280	putative lyase; Provisional	82.8
PRK10564	303	maltose regulon periplasmic protein; Provisional	82.66
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	82.65
KOG2471	696	consensus TPR repeat-containing protein [General f	82.63
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	82.12
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	82.04
PHA02875	413	ankyrin repeat protein; Provisional	81.78
KOG3364	149	consensus Membrane protein involved in organellar	81.43
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	81.14
PRK10941	269	hypothetical protein; Provisional	81.11
KOG4814	872	consensus Uncharacterized conserved protein [Funct	80.75
COG5108	1117	RPO41 Mitochondrial DNA-directed RNA polymerase [T	80.13
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	80.02

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=9.3e-42  Score=274.62  Aligned_cols=214  Identities=21%  Similarity=0.336  Sum_probs=88.9

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      ++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|+.|.+.|+.||..+|+.++.+|++.|++++|.
T Consensus       483 ~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~  562 (1060)
T PLN03218        483 AKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAF  562 (1060)
T ss_pred             HhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            33444444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HHHHHHHh--cCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           83 MMFSKMLE--KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        83 ~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      ++|++|..  .++.||..+|+.++.+|++.|++++|.++|+.|.+.|++|+..+|+.++.+|++.|++++|.++|++|.+
T Consensus       563 ~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~  642 (1060)
T PLN03218        563 DVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK  642 (1060)
T ss_pred             HHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            44444432  2333344444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcC
Q 027412          161 NHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSS  216 (223)
Q Consensus       161 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  216 (223)
                      .|+.||..+|+.++.+|.+.|++++|.+++++|.+.|+.||..+|+.++.+|++.|
T Consensus       643 ~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G  698 (1060)
T PLN03218        643 KGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAK  698 (1060)
T ss_pred             cCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCC
Confidence            44444444444444444444444444444444444444444444444444444433

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.3e-41  Score=273.75  Aligned_cols=216  Identities=18%  Similarity=0.335  Sum_probs=106.9

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHh--CCCCCcHHHHHHHHHHHHhcCChh
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTC--VQLKPNSITFTILIDAFCKEGRMD   79 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~   79 (223)
                      |++.|++++|+++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|..  .++.||..+|+.++.+|++.|+++
T Consensus       517 y~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ld  596 (1060)
T PLN03218        517 CARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVD  596 (1060)
T ss_pred             HHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHH
Confidence            445555555555555555555555555555555555555555555555555543  334455555555555555555555


Q ss_pred             HHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      +|.++|+.|.+.++.|+..+|+.++.+|++.|++++|..+|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.
T Consensus       597 eA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~  676 (1060)
T PLN03218        597 RAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDAR  676 (1060)
T ss_pred             HHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            55555555555544444445555555554444444444444444444444444444444444444444444444444444


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCC
Q 027412          160 DNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSG  217 (223)
Q Consensus       160 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  217 (223)
                      +.|+.|+..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|.
T Consensus       677 k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~  734 (1060)
T PLN03218        677 KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQ  734 (1060)
T ss_pred             HcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC
Confidence            4444444444444444444444444444444444444444444444444444444443

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

Probab=100.00  E-value=2.7e-38  Score=250.78  Aligned_cols=211  Identities=20%  Similarity=0.353  Sum_probs=141.3

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      |++.|++++|.++|++|..    +|..+|+.++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|
T Consensus       269 y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a  344 (697)
T PLN03081        269 YSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHA  344 (697)
T ss_pred             HHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHH
Confidence            5566666677666666653    356666777777777777777777777666666666666676666766666666666


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      .+++..|.+.|..|+..+|+.|+.+|++.|++++|.++|++|.    .||..+|+.+|.+|++.|+.++|.++|++|.+.
T Consensus       345 ~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~  420 (697)
T PLN03081        345 KQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAE  420 (697)
T ss_pred             HHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6666666666666666666666666666666666666666664    356666666666666666666666666666666


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH-CCCCCchhhHHHHhhhHhhcCCCcc
Q 027412          162 HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR-NGIMPDGLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       162 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~p~~~~~~~l~~~~~~~~~~~~  220 (223)
                      |+.||..||+.++.+|.+.|..++|.++|+.|.+ .|+.|+..+|+.++.+|++.|..++
T Consensus       421 g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~e  480 (697)
T PLN03081        421 GVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDE  480 (697)
T ss_pred             CCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHH
Confidence            6666666666666666666666666666666654 3666666666666666666665443

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

Probab=100.00  E-value=4.1e-38  Score=249.79  Aligned_cols=213  Identities=23%  Similarity=0.333  Sum_probs=202.5

Q ss_pred             CcccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH
Q 027412            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         1 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      +|++.|++++|+++|++|.+.|+.||..+|+.++.+|++.|++++|.+++..|.+.|+.||..+++.|+.+|++.|++++
T Consensus       299 ~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~  378 (697)
T PLN03081        299 GYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMED  378 (697)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHH
Confidence            47889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      |.++|++|.    .||..+|+.++.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|.+
T Consensus       379 A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~  454 (697)
T PLN03081        379 ARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSE  454 (697)
T ss_pred             HHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Confidence            999999995    4689999999999999999999999999999999999999999999999999999999999999985


Q ss_pred             -CCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCcc
Q 027412          161 -NHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       161 -~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  220 (223)
                       .|+.|+..+|+.++.+|.+.|++++|.+++++|   ++.|+..+|++|+.+|...|+.+.
T Consensus       455 ~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~  512 (697)
T PLN03081        455 NHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLEL  512 (697)
T ss_pred             hcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHH
Confidence             699999999999999999999999999998765   579999999999999998886543

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.5e-36  Score=243.71  Aligned_cols=208  Identities=20%  Similarity=0.328  Sum_probs=129.3

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHH-----------------------------------HHHHHHHHhcCchhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITY-----------------------------------NTIICGYCSLNRLDEA   46 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-----------------------------------~~l~~~~~~~~~~~~a   46 (223)
                      |++.|++++|+++|++|...|+.||..+|                                   +.|+.+|++.|+++.|
T Consensus       162 ~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A  241 (857)
T PLN03077        162 YAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSA  241 (857)
T ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHH
Confidence            55667777777777777666666655444                                   3444445555555555


Q ss_pred             HHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           47 VQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        47 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      .++|++|.    .||..+|+.++.+|++.|++++|.++|++|...|+.||..||+.++.+|.+.|+.+.+.+++..+.+.
T Consensus       242 ~~lf~~m~----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~  317 (857)
T PLN03077        242 RLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKT  317 (857)
T ss_pred             HHHHhcCC----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHh
Confidence            55555554    34555666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHH
Q 027412          127 NISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLS  206 (223)
Q Consensus       127 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  206 (223)
                      |+.||..+|+.++.+|++.|++++|.++|++|..    ||..+|+.++.+|.+.|++++|.++|++|.+.|+.||..||+
T Consensus       318 g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~  393 (857)
T PLN03077        318 GFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIA  393 (857)
T ss_pred             CCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHH
Confidence            6666666666666666666666666666666542    455566666666666666666666666666666666666666


Q ss_pred             HHhhhHhhcCC
Q 027412          207 TLADYNLQSSG  217 (223)
Q Consensus       207 ~l~~~~~~~~~  217 (223)
                      .++.+|++.|.
T Consensus       394 ~ll~a~~~~g~  404 (857)
T PLN03077        394 SVLSACACLGD  404 (857)
T ss_pred             HHHHHHhccch
Confidence            66666655554

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.2e-35  Score=240.63  Aligned_cols=210  Identities=21%  Similarity=0.309  Sum_probs=145.8

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      |++.|+++.|.++|++|..    ||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|+.+.+
T Consensus       232 y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a  307 (857)
T PLN03077        232 YVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLG  307 (857)
T ss_pred             HhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHH
Confidence            5666777777777776653    456667777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      .+++..|.+.|..||..+|+.++.+|.+.|++++|.++|++|.    .||..+|+.++.+|.+.|++++|.++|++|.+.
T Consensus       308 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~  383 (857)
T PLN03077        308 REMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQD  383 (857)
T ss_pred             HHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            7777777777777777777777777777777777777776664    356666777777777777777777777777666


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCc
Q 027412          162 HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQ  219 (223)
Q Consensus       162 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  219 (223)
                      |+.||..+|+.++.+|++.|++++|.++++.+.+.|+.|+..+++.|+.+|++.|..+
T Consensus       384 g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~  441 (857)
T PLN03077        384 NVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCID  441 (857)
T ss_pred             CCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHH
Confidence            6667777777777777777777777777777777677777777777777776666544

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=8.1e-20  Score=136.96  Aligned_cols=207  Identities=22%  Similarity=0.195  Sum_probs=143.8

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCc----HHHHHHHHHHHHhcCC
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN----SITFTILIDAFCKEGR   77 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~   77 (223)
                      |.+.|++++|+.+|+++.+.. +++..++..++.++.+.|++++|.+.++.+.+.+..+.    ...+..+...+.+.|+
T Consensus       117 ~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  195 (389)
T PRK11788        117 YLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGD  195 (389)
T ss_pred             HHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCC
Confidence            345677777777777776652 33566677777777777777777777777766543322    1234556666777777


Q ss_pred             hhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHH
Q 027412           78 MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHC  157 (223)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  157 (223)
                      +++|...++++.+..+. +...+..+...+.+.|++++|.++++++...+......+++.++.+|...|++++|...+++
T Consensus       196 ~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~  274 (389)
T PRK11788        196 LDAARALLKKALAADPQ-CVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRR  274 (389)
T ss_pred             HHHHHHHHHHHHhHCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888887777766544 45566777777888888888888888877653222245667777788888888888888887


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhh
Q 027412          158 ALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQ  214 (223)
Q Consensus       158 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  214 (223)
                      +.+..  |+...+..++..+.+.|++++|..+++++.+.  .|+..++..++..+..
T Consensus       275 ~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~  327 (389)
T PRK11788        275 ALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLA  327 (389)
T ss_pred             HHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhh
Confidence            77654  44455677777888888888888888877764  6777777777776654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=8.4e-20  Score=136.90  Aligned_cols=213  Identities=16%  Similarity=0.167  Sum_probs=116.4

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcC---HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChh
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPD---IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD   79 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   79 (223)
                      .+.|++++|+.+++.+...+..++   ...+..++..|...|++++|..+|+++.+.. +++..++..++..+.+.|+++
T Consensus        80 ~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~  158 (389)
T PRK11788         80 RRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQ  158 (389)
T ss_pred             HHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHH
Confidence            345555555555555554321111   1334555555555566666666665555432 224455555666666666666


Q ss_pred             HHHHHHHHHHhcCCCcc----HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHH
Q 027412           80 DATMMFSKMLEKGPKAN----VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAF  155 (223)
Q Consensus        80 ~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  155 (223)
                      +|.+.++.+.+.++.+.    ...+..+...+...|++++|...++++.+.. +.+...+..++..+.+.|++++|.+.+
T Consensus       159 ~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~  237 (389)
T PRK11788        159 KAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEAL  237 (389)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            66666666555443321    1133445555556666666666666665543 334445556666666666666666666


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCc
Q 027412          156 HCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQ  219 (223)
Q Consensus       156 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  219 (223)
                      +++.+.++.....+++.++.+|...|++++|...++++.+.  .|+...+..+...+.+.|..+
T Consensus       238 ~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~  299 (389)
T PRK11788        238 ERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPE  299 (389)
T ss_pred             HHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHH
Confidence            66665443222345566666666666666666666666653  455555555555555555443

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

Probab=99.83  E-value=1e-17  Score=137.56  Aligned_cols=210  Identities=17%  Similarity=0.096  Sum_probs=141.4

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      ..|++++|+++++.+.+.+ +.+...+..+..++...|++++|...|+++....  |+..++..++.++.+.|++++|.+
T Consensus       681 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~  757 (899)
T TIGR02917       681 AAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVK  757 (899)
T ss_pred             HcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHH
Confidence            3455555555555554443 2244455555566666666666666666665543  233445556666666666666666


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      .++++.+..+. +...+..+...|...|++++|...|+++.+.. +.+..+++.++..+...|+ ++|+..++++.+..+
T Consensus       758 ~~~~~l~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~  834 (899)
T TIGR02917       758 TLEAWLKTHPN-DAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAP  834 (899)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCC
Confidence            66666665554 56667777777777777777777777777664 5666777777777777777 667777777766544


Q ss_pred             CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCccc
Q 027412          164 LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  221 (223)
Q Consensus       164 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~~  221 (223)
                       .+..++..+...+...|++++|..+++++++.+.. +..++..+...+++.|+.+++
T Consensus       835 -~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A  890 (899)
T TIGR02917       835 -NIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEA  890 (899)
T ss_pred             -CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHH
Confidence             35566777888888999999999999999986533 778888888888888876654

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=3e-17  Score=134.79  Aligned_cols=161  Identities=17%  Similarity=0.163  Sum_probs=66.1

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhh
Q 027412           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS  110 (223)
Q Consensus        31 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  110 (223)
                      ..++..+...|++++|..+++.+.+.. +.+..+|..++.++...|++++|...++++.+.++. +...+..+..++...
T Consensus       571 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~  648 (899)
T TIGR02917       571 LALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPD-SALALLLLADAYAVM  648 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHc
Confidence            333333334444444444444433222 123334444444444444444444444444433322 333344444444444


Q ss_pred             CChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHH
Q 027412          111 QNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLY  190 (223)
Q Consensus       111 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  190 (223)
                      |++++|...++++.+.. +.+..++..++..+...|++++|.++++.+.+.++ .+...+..+...+...|++++|...+
T Consensus       649 ~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~  726 (899)
T TIGR02917       649 KNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHP-KAALGFELEGDLYLRQKDYPAAIQAY  726 (899)
T ss_pred             CCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CChHHHHHHHHHHHHCCCHHHHHHHH
Confidence            44444444444444332 22333444444444444444444444444433332 23334444444444444444444444


Q ss_pred             HHHHH
Q 027412          191 DSMLR  195 (223)
Q Consensus       191 ~~~~~  195 (223)
                      +++.+
T Consensus       727 ~~~~~  731 (899)
T TIGR02917       727 RKALK  731 (899)
T ss_pred             HHHHh
Confidence            44444

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.

>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=99.76  E-value=1.2e-15  Score=120.56  Aligned_cols=210  Identities=15%  Similarity=0.096  Sum_probs=119.5

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      ..|++++|+..|++..+.. +.....|..+..++...|++++|...|+++.+..+ .+..++..+...+...|++++|..
T Consensus       343 ~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~  420 (615)
T TIGR00990       343 LKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNS-EDPDIYYHRAQLHFIKGEFAQAGK  420 (615)
T ss_pred             HcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHH
Confidence            4566666666666665542 11344566666666666666666666666655532 245566666666666666666666


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      .|++.....+. +...+..+..++.+.|++++|+..+++..+.. +.+...++.+..++...|++++|.+.|++.....+
T Consensus       421 ~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p  498 (615)
T TIGR00990       421 DYQKSIDLDPD-FIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEK  498 (615)
T ss_pred             HHHHHHHcCcc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC
Confidence            66666665544 45556666666666666666666666666542 44456666666666666666666666666655432


Q ss_pred             CCCH-----H-HHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCch-hhHHHHhhhHhhcCCCc
Q 027412          164 LPDV-----V-TYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDG-LLLSTLADYNLQSSGSQ  219 (223)
Q Consensus       164 ~~~~-----~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~  219 (223)
                      ..+.     . .++.....+...|++++|.+++++..+.  .|+. ..+..+...+.+.|+.+
T Consensus       499 ~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l--~p~~~~a~~~la~~~~~~g~~~  559 (615)
T TIGR00990       499 ETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALII--DPECDIAVATMAQLLLQQGDVD  559 (615)
T ss_pred             ccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHccCHH
Confidence            2111     0 1111122233346666666666666653  3443 24555555555555443

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

Probab=99.76  E-value=6.1e-16  Score=115.94  Aligned_cols=193  Identities=20%  Similarity=0.248  Sum_probs=169.6

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      |...|.++.|++.|++..+.  .|+ +.+|+.|..++-..|++.+|.+.|.+.....+. -..+.+.|...|...|.++.
T Consensus       296 YyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-hadam~NLgni~~E~~~~e~  372 (966)
T KOG4626|consen  296 YYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HADAMNNLGNIYREQGKIEE  372 (966)
T ss_pred             EeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhccchH
Confidence            56789999999999999887  444 779999999999999999999999999877533 56778889999999999999


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN-IVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      |.++|.......+. -...++.|...|-+.|++++|+..+++.++.  .|+ ...|+.+...|-..|+.+.|.+.+.+.+
T Consensus       373 A~~ly~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI  449 (966)
T KOG4626|consen  373 ATRLYLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVSAAIQCYTRAI  449 (966)
T ss_pred             HHHHHHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHHHHHHHHHHHH
Confidence            99999999887655 5678899999999999999999999999985  454 6789999999999999999999999998


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          160 DNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       160 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                      ..++. -.+.++.|...|...|+..+|++.|++.++  ++||..
T Consensus       450 ~~nPt-~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDfp  490 (966)
T KOG4626|consen  450 QINPT-FAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDFP  490 (966)
T ss_pred             hcCcH-HHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCCc
Confidence            87652 457889999999999999999999999998  688854

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.75  E-value=1.6e-15  Score=120.01  Aligned_cols=175  Identities=19%  Similarity=0.190  Sum_probs=97.8

Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhH--
Q 027412           38 CSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKS--  115 (223)
Q Consensus        38 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--  115 (223)
                      ...|++++|...++.+.+....++......++.++.+.|++++|+..+++..+.++. +...+..+..++...|++++  
T Consensus       188 ~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~  266 (656)
T PRK15174        188 LNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAK  266 (656)
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhH
Confidence            334444444444444333322222222333344555556666666666666655444 45555666666666666664  


Q ss_pred             --HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          116 --AFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       116 --a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                        |...++++.... |.+..++..+...+...|++++|...+++..+..+ .+...+..+..++...|++++|...++++
T Consensus       267 ~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~~~a~~~La~~l~~~G~~~eA~~~l~~a  344 (656)
T PRK15174        267 LQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHP-DLPYVRAMYARALRQVGQYTAASDEFVQL  344 (656)
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence              566666666653 44556666677777777777777777777666554 24555666667777777777777777776


Q ss_pred             HHCCCCCchhhHHH-HhhhHhhcCC
Q 027412          194 LRNGIMPDGLLLST-LADYNLQSSG  217 (223)
Q Consensus       194 ~~~~~~p~~~~~~~-l~~~~~~~~~  217 (223)
                      .+.  .|+...+.. +..++...|+
T Consensus       345 l~~--~P~~~~~~~~~a~al~~~G~  367 (656)
T PRK15174        345 ARE--KGVTSKWNRYAAAALLQAGK  367 (656)
T ss_pred             HHh--CccchHHHHHHHHHHHHCCC
Confidence            663  444433322 2333444443

>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=99.75  E-value=3.4e-15  Score=118.03  Aligned_cols=187  Identities=18%  Similarity=0.118  Sum_probs=164.3

Q ss_pred             cCHHHHHHHHHHHhhCC-C-CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            6 CHLDAALKLFGQLTDRG-L-EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         6 g~~~~A~~~~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      +++++|++.|+...+.+ . +.....+..+..++...|++++|+..+++..+..+. ....|..+...+...|++++|..
T Consensus       308 ~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~  386 (615)
T TIGR00990       308 ESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEE  386 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHH
Confidence            57899999999998764 2 224567888889999999999999999999877432 46688889999999999999999


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      .|++..+.++. +..+|..+...+...|++++|...|++..+.. +.+...+..+..++.+.|++++|+..+++..+..+
T Consensus       387 ~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P  464 (615)
T TIGR00990       387 DFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFP  464 (615)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            99999988765 78899999999999999999999999999875 66778888999999999999999999999987654


Q ss_pred             CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          164 LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       164 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                       .+...++.+..++...|++++|...|++..+.
T Consensus       465 -~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       465 -EAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             -CChHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence             46788999999999999999999999999874

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

Probab=99.75  E-value=9.4e-17  Score=120.44  Aligned_cols=211  Identities=15%  Similarity=0.125  Sum_probs=174.5

Q ss_pred             cccccCHHHHHHHHHHHhhCCC---------------------------------CcCHHHHHHHHHHHHhcCchhHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGL---------------------------------EPDIITYNTIICGYCSLNRLDEAVQ   48 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~---------------------------------~~~~~~~~~l~~~~~~~~~~~~a~~   48 (223)
                      |+..+++++|..+|+.+.+...                                 +..+.+|..+..+|.-.++++.|++
T Consensus       363 yFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik  442 (638)
T KOG1126|consen  363 YFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFSLQKDHDTAIK  442 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHH
Confidence            5666788888888888766421                                 1147788888899999999999999


Q ss_pred             HHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC
Q 027412           49 LFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (223)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  128 (223)
                      .|++..+.+.. ...+|+.+..-+.....+|.|...|+..+..+++ +..+|.-+...|.+.++++.|+-.|+++.+.+ 
T Consensus       443 ~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-  519 (638)
T KOG1126|consen  443 CFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-  519 (638)
T ss_pred             HHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-
Confidence            99999877422 7789999999999999999999999999887666 67788889999999999999999999999987 


Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHH
Q 027412          129 SPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTL  208 (223)
Q Consensus       129 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  208 (223)
                      |.+......+...+.+.|+.|+|+.+++++...++. |+..--..+..+...+++++|+..++++.+  +.|+..+...+
T Consensus       520 P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~--~vP~es~v~~l  596 (638)
T KOG1126|consen  520 PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQELEELKE--LVPQESSVFAL  596 (638)
T ss_pred             ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHHHHHHHH--hCcchHHHHHH
Confidence            777888888999999999999999999999988774 666666677888899999999999999998  68887766666


Q ss_pred             hhh-HhhcCCC
Q 027412          209 ADY-NLQSSGS  218 (223)
Q Consensus       209 ~~~-~~~~~~~  218 (223)
                      +.- |-+-|+.
T Consensus       597 lgki~k~~~~~  607 (638)
T KOG1126|consen  597 LGKIYKRLGNT  607 (638)
T ss_pred             HHHHHHHHccc
Confidence            554 4444443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.74  E-value=6.2e-15  Score=116.71  Aligned_cols=191  Identities=14%  Similarity=0.121  Sum_probs=160.9

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH-
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD-   80 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-   80 (223)
                      +.+.|++++|+..++.+.+....++...+..+...+.+.|++++|...++++.+..+. +...+..+...+...|++++ 
T Consensus       187 l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA  265 (656)
T PRK15174        187 FLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREA  265 (656)
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhh
Confidence            3467889999999998877643344455566678889999999999999999987633 67888889999999999986 


Q ss_pred             ---HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHH
Q 027412           81 ---ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHC  157 (223)
Q Consensus        81 ---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  157 (223)
                         |...+++..+..|. +...+..+...+...|++++|...++++.... +.+...+..+..++.+.|++++|...+++
T Consensus       266 ~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~  343 (656)
T PRK15174        266 KLQAAEHWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQ  343 (656)
T ss_pred             HHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence               89999999998776 78899999999999999999999999999875 56677888899999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          158 ALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       158 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      +...++. +...+..+..++...|++++|...|++..+.
T Consensus       344 al~~~P~-~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        344 LAREKGV-TSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHhCcc-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9876542 3334455677889999999999999999875

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.74  E-value=9.5e-15  Score=101.77  Aligned_cols=167  Identities=15%  Similarity=0.104  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (223)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+..+. +...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHH
Confidence            4445555555666666666666666555443 123445555555566666666666666655555443 44455555555


Q ss_pred             HHhhCChhHHHHHHHHHHHCCC-CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcch
Q 027412          107 YFKSQNMKSAFDVYEEMCENNI-SPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTE  185 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  185 (223)
                      +...|++++|...+++...... +.....+..+..++...|++++|...+.+..+..+ .+...+..+...+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHHHHcCCHHH
Confidence            6666666666666665554311 12233445555555566666666666665555433 234455555555666666666


Q ss_pred             HHHHHHHHHHC
Q 027412          186 AMQLYDSMLRN  196 (223)
Q Consensus       186 a~~~~~~~~~~  196 (223)
                      |...+++..+.
T Consensus       188 A~~~~~~~~~~  198 (234)
T TIGR02521       188 ARAYLERYQQT  198 (234)
T ss_pred             HHHHHHHHHHh
Confidence            66666655553

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

>PRK12370 invasion protein regulator; Provisional

Probab=99.72  E-value=1.5e-14  Score=112.68  Aligned_cols=205  Identities=16%  Similarity=0.074  Sum_probs=158.1

Q ss_pred             cCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh---------cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcC
Q 027412            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS---------LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG   76 (223)
Q Consensus         6 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   76 (223)
                      +.+++|+..|++..+..+. +...|..+..++..         .+++++|...+++..+.++. +..++..+...+...|
T Consensus       275 ~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~-~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHN-NPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcc
Confidence            4578999999999887432 45667666665543         24478999999999988644 7788888989999999


Q ss_pred             ChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHH
Q 027412           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFH  156 (223)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  156 (223)
                      ++++|...+++..+.+|. +...+..+..++...|++++|...++++.+.+ |.+...+..++..+...|++++|...++
T Consensus       353 ~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~-P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLD-PTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            999999999999998876 77788889999999999999999999999875 3344444455556777899999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHh-hhHhhcC
Q 027412          157 CALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLA-DYNLQSS  216 (223)
Q Consensus       157 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~-~~~~~~~  216 (223)
                      ++.+...+.++..+..+..++...|++++|...+.++...  .|+.......+ ..++..|
T Consensus       431 ~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g  489 (553)
T PRK12370        431 ELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS  489 (553)
T ss_pred             HHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH
Confidence            9876643235666788888899999999999999987663  55544444433 3444444

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

Probab=99.72  E-value=2.7e-16  Score=112.71  Aligned_cols=210  Identities=20%  Similarity=0.186  Sum_probs=107.2

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      ..++++.|+..++++...+.. ++..+..++.. ...+++++|.++++...+.  .+++..+..++..+.+.++++++.+
T Consensus        56 ~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~  131 (280)
T PF13429_consen   56 SLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEE  131 (280)
T ss_dssp             ------------------------------------------------------------------H-HHHTT-HHHHHH
T ss_pred             ccccccccccccccccccccc-ccccccccccc-ccccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHH
Confidence            457889999999999877533 56677777777 7888999999998887655  3466667778888889999999999


Q ss_pred             HHHHHHhcC-CCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           84 MFSKMLEKG-PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        84 ~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      +++.+.... .+.+...|..+...+.+.|++++|...+++..+.. |.|......++..+...|+.+++.+++....+..
T Consensus       132 ~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~  210 (280)
T PF13429_consen  132 LLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA  210 (280)
T ss_dssp             HHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC
Confidence            998876543 24577888888899999999999999999998874 5568888889999999999999888888777654


Q ss_pred             CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCC-chhhHHHHhhhHhhcCCCccc
Q 027412          163 LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMP-DGLLLSTLADYNLQSSGSQEH  221 (223)
Q Consensus       163 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~~  221 (223)
                       +.|+..+..+..++...|++++|..++++..+.  .| |+.....+..++.+.|..++|
T Consensus       211 -~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~--~p~d~~~~~~~a~~l~~~g~~~~A  267 (280)
T PF13429_consen  211 -PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL--NPDDPLWLLAYADALEQAGRKDEA  267 (280)
T ss_dssp             -HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH--STT-HHHHHHHHHHHT--------
T ss_pred             -cCHHHHHHHHHHHhccccccccccccccccccc--cccccccccccccccccccccccc
Confidence             245567788899999999999999999998874  55 556666777777777776654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.71  E-value=4e-14  Score=98.64  Aligned_cols=190  Identities=14%  Similarity=0.113  Sum_probs=161.4

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +...|++++|++.+++..+.. +.+...+..+...+...|++++|.+.+++..+.... +...+..+...+...|++++|
T Consensus        41 ~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~g~~~~A  118 (234)
T TIGR02521        41 YLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYGTFLCQQGKYEQA  118 (234)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcccHHHH
Confidence            457899999999999998764 335778889999999999999999999999877533 667788899999999999999


Q ss_pred             HHHHHHHHhcCCC-ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           82 TMMFSKMLEKGPK-ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        82 ~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      .+.+++....... .....+..+..++...|++++|...+++..... +.+...+..+...+...|++++|...+++..+
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  197 (234)
T TIGR02521       119 MQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQ  197 (234)
T ss_pred             HHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999875322 244567778899999999999999999998864 55677889999999999999999999999887


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          161 NHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       161 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      .. ..+...+..++..+...|+.++|..+.+.+..
T Consensus       198 ~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       198 TY-NQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             hC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            63 35677778888999999999999999888765

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.

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

Probab=99.70  E-value=1.9e-16  Score=113.53  Aligned_cols=186  Identities=22%  Similarity=0.210  Sum_probs=70.3

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCC-CCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-LKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      ..+++++|.+++....+.  .+++..+..++..+.+.++++++.++++.+.... .+.+...|..+...+.+.|++++|+
T Consensus        89 ~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~  166 (280)
T PF13429_consen   89 QDGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKAL  166 (280)
T ss_dssp             -------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHH
T ss_pred             cccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            345555555555544433  2334444555555555555555555555544322 2234445555555555555555555


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      +.+++..+..|. +......++..+...|+.+++..+++...... +.|+..+..+..++...|+.++|..++++..+..
T Consensus       167 ~~~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~  244 (280)
T PF13429_consen  167 RDYRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN  244 (280)
T ss_dssp             HHHHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc
Confidence            555555555444 44555555555555555555555555554432 3444455555555555555555555555555443


Q ss_pred             CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 027412          163 LLPDVVTYAILIRGYCKAGRPTEAMQLYDSML  194 (223)
Q Consensus       163 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  194 (223)
                      + .|+.....+..++...|+.++|.++..++.
T Consensus       245 p-~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  245 P-DDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             T-T-HHHHHHHHHHHT----------------
T ss_pred             c-cccccccccccccccccccccccccccccc
Confidence            3 245555555555555555555555555443

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

Probab=99.68  E-value=5.2e-15  Score=111.04  Aligned_cols=206  Identities=17%  Similarity=0.194  Sum_probs=107.7

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC-------------------------
Q 027412            5 ECHLDAALKLFGQLTDRGLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-------------------------   58 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------------------------   58 (223)
                      .|++..|+..|++..+.+  |+ ..+|..|...|...+.+++|+..|.+.....+                         
T Consensus       231 ~Gei~~aiq~y~eAvkld--P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~  308 (966)
T KOG4626|consen  231 QGEIWLAIQHYEEAVKLD--PNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDT  308 (966)
T ss_pred             cchHHHHHHHHHHhhcCC--CcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHH
Confidence            455556666666555542  22 44555555555555555555555555443321                         


Q ss_pred             -------CC-cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCC
Q 027412           59 -------KP-NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP  130 (223)
Q Consensus        59 -------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  130 (223)
                             .| -+..|+.|..++-..|+..+|+..+.+.+...+. .....+.|..+|...|.+++|..+|....+.. +.
T Consensus       309 Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v~-p~  386 (966)
T KOG4626|consen  309 YKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HADAMNNLGNIYREQGKIEEATRLYLKALEVF-PE  386 (966)
T ss_pred             HHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhhC-hh
Confidence                   11 2344555555555555555555555555554443 44455555555555555555555555555431 22


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh-hHHHHh
Q 027412          131 NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL-LLSTLA  209 (223)
Q Consensus       131 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l~  209 (223)
                      -...++.|...|..+|++++|+..|++.++-.+ .-...|+.+...|...|+.+.|.+.+.+.+.  +.|.-. ..+.|.
T Consensus       387 ~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P-~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~--~nPt~AeAhsNLa  463 (966)
T KOG4626|consen  387 FAAAHNNLASIYKQQGNLDDAIMCYKEALRIKP-TFADALSNMGNTYKEMGDVSAAIQCYTRAIQ--INPTFAEAHSNLA  463 (966)
T ss_pred             hhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCc-hHHHHHHhcchHHHHhhhHHHHHHHHHHHHh--cCcHHHHHHhhHH
Confidence            234556666666666666666666666554332 1234566666666666666666666666665  455533 333333


Q ss_pred             hhHhhcCC
Q 027412          210 DYNLQSSG  217 (223)
Q Consensus       210 ~~~~~~~~  217 (223)
                      ..|-.+|+
T Consensus       464 si~kDsGn  471 (966)
T KOG4626|consen  464 SIYKDSGN  471 (966)
T ss_pred             HHhhccCC
Confidence            33333333

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.68  E-value=9.7e-14  Score=113.18  Aligned_cols=190  Identities=11%  Similarity=-0.003  Sum_probs=133.7

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      ..|++++|+..|+++...  +|+...+..+...+.+.|+.++|...+++..+..+. +...+..+.......|++++|..
T Consensus       521 ~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~  597 (987)
T PRK09782        521 QVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHAQRYIPGQPELALN  597 (987)
T ss_pred             HCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHhCCCHHHHHH
Confidence            567778888888776554  334445556667777778888888888777765422 33333333344445588888888


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      .+++..+..|  +...+..+..++.+.|++++|...+++..... |.+...++.+..++...|++++|+..+++..+..+
T Consensus       598 ~~~~AL~l~P--~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P  674 (987)
T PRK09782        598 DLTRSLNIAP--SANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP  674 (987)
T ss_pred             HHHHHHHhCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            8887777554  46677777788888888888888888887764 55667777777788888888888888888777655


Q ss_pred             CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCch
Q 027412          164 LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDG  202 (223)
Q Consensus       164 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  202 (223)
                       -+...+..+..++...|++++|...+++..+  +.|+.
T Consensus       675 -~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~--l~P~~  710 (987)
T PRK09782        675 -DDPALIRQLAYVNQRLDDMAATQHYARLVID--DIDNQ  710 (987)
T ss_pred             -CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCC
Confidence             3667777788888888888888888888776  34554

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.67  E-value=9e-14  Score=116.83  Aligned_cols=196  Identities=15%  Similarity=0.096  Sum_probs=154.0

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCc-HHHH------------HHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN-SITF------------TIL   68 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~------------~~l   68 (223)
                      +...|++++|+..|++..+..+ .+..++..+..++.+.|++++|+..|++..+...... ...|            ...
T Consensus       279 ~~~~g~~~~A~~~l~~aL~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~  357 (1157)
T PRK11447        279 AVDSGQGGKAIPELQQAVRANP-KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQ  357 (1157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHH
Confidence            3567999999999999988743 3788899999999999999999999999987653321 1111            223


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHH----------
Q 027412           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSIL----------  138 (223)
Q Consensus        69 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----------  138 (223)
                      ...+.+.|++++|+..|++..+..+. +...+..+..++...|++++|++.|+++.+.. +.+...+..+          
T Consensus       358 g~~~~~~g~~~eA~~~~~~Al~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~  435 (1157)
T PRK11447        358 GDAALKANNLAQAERLYQQARQVDNT-DSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPE  435 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHH
Confidence            45677899999999999999998775 67788889999999999999999999998764 3334333332          


Q ss_pred             --------------------------------HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchH
Q 027412          139 --------------------------------IDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEA  186 (223)
Q Consensus       139 --------------------------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  186 (223)
                                                      ...+...|++++|.+.+++..+..+ -+...+..+...+.+.|++++|
T Consensus       436 ~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P-~~~~~~~~LA~~~~~~G~~~~A  514 (1157)
T PRK11447        436 KALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDP-GSVWLTYRLAQDLRQAGQRSQA  514 (1157)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHH
Confidence                                            3344567899999999999988765 3677888899999999999999


Q ss_pred             HHHHHHHHHCCCCCchh
Q 027412          187 MQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       187 ~~~~~~~~~~~~~p~~~  203 (223)
                      ...++++.+.  .|+..
T Consensus       515 ~~~l~~al~~--~P~~~  529 (1157)
T PRK11447        515 DALMRRLAQQ--KPNDP  529 (1157)
T ss_pred             HHHHHHHHHc--CCCCH
Confidence            9999999874  45443

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

Probab=99.66  E-value=9.8e-14  Score=100.74  Aligned_cols=189  Identities=15%  Similarity=0.170  Sum_probs=161.8

Q ss_pred             cccCHHHHHHHHHHHhhCCCC--cCHHHHHHHH-------------------------------HHHHhcCchhHHHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLE--PDIITYNTII-------------------------------CGYCSLNRLDEAVQLF   50 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~l~-------------------------------~~~~~~~~~~~a~~~~   50 (223)
                      ...++++|+.+|+++.+..+-  -|..+|+.++                               +-|+-.++.++|...|
T Consensus       274 ~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YF  353 (559)
T KOG1155|consen  274 NQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYF  353 (559)
T ss_pred             hhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHH
Confidence            457899999999999887421  1455565544                               3344457789999999


Q ss_pred             HHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCC
Q 027412           51 EKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP  130 (223)
Q Consensus        51 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  130 (223)
                      ++..+.++. ...+|+.+++-|...++...|.+-+++..+.+|. |-..|-.|.++|.-.+.+.=|+-.|+++.... |.
T Consensus       354 kRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-Pn  430 (559)
T KOG1155|consen  354 KRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PN  430 (559)
T ss_pred             HHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CC
Confidence            999988744 6788999999999999999999999999998876 89999999999999999999999999999874 77


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          131 NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       131 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      |...|.+|..+|.+.++.++|++.|.+....|- .+...+..+...+-+.++..+|.+.|++.++.
T Consensus       431 DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~l~d~~eAa~~yek~v~~  495 (559)
T KOG1155|consen  431 DSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEELKDLNEAAQYYEKYVEV  495 (559)
T ss_pred             chHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            899999999999999999999999999987654 36688999999999999999999999888763

>PRK12370 invasion protein regulator; Provisional

Probab=99.66  E-value=2e-13  Score=106.47  Aligned_cols=186  Identities=11%  Similarity=0.062  Sum_probs=148.8

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      .+++++|...+++..+.++ .+...+..+..++...|++++|...|+++.+.++. +...+..+..++...|++++|...
T Consensus       317 ~~~~~~A~~~~~~Al~ldP-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~  394 (553)
T PRK12370        317 QNAMIKAKEHAIKATELDH-NNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQT  394 (553)
T ss_pred             chHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4568999999999998853 36788889999999999999999999999988633 677888899999999999999999


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL  164 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  164 (223)
                      +++..+.+|. +...+..++..+...|++++|...++++.....+.+...+..+..++...|++++|...+.++....+ 
T Consensus       395 ~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~-  472 (553)
T PRK12370        395 INECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEI-  472 (553)
T ss_pred             HHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccc-
Confidence            9999998776 44444445556777899999999999988754233556678888999999999999999998766533 


Q ss_pred             CCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          165 PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       165 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      .+....+.+...+...|  ++|...++.+.+.
T Consensus       473 ~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        473 TGLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             hhHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            24445566666777777  4788878777654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.65  E-value=1.8e-13  Score=111.61  Aligned_cols=205  Identities=14%  Similarity=0.119  Sum_probs=162.9

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      .+++++|+..|.+....  .|+......+...+...|++++|...|+++...  +|+...+..+..++.+.|++++|...
T Consensus       489 ~~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~  564 (987)
T PRK09782        489 DTLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRW  564 (987)
T ss_pred             hCCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHH
Confidence            36788899988888776  355544445556667899999999999998654  44445566778889999999999999


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL  164 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  164 (223)
                      +++..+.++. +...+..+.......|++++|...+++..+.  .|+...+..+..++.+.|++++|...+++.....+ 
T Consensus       565 l~qAL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~P-  640 (987)
T PRK09782        565 LQQAEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELEP-  640 (987)
T ss_pred             HHHHHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-
Confidence            9999987654 4444444445555669999999999999985  46788999999999999999999999999999876 


Q ss_pred             CCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh-hHHHHhhhHhhcCCCc
Q 027412          165 PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL-LLSTLADYNLQSSGSQ  219 (223)
Q Consensus       165 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~  219 (223)
                      .+...++.+..++...|++++|+..+++..+  ..|+.. .+..+..++...|+.+
T Consensus       641 d~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~--l~P~~~~a~~nLA~al~~lGd~~  694 (987)
T PRK09782        641 NNSNYQAALGYALWDSGDIAQSREMLERAHK--GLPDDPALIRQLAYVNQRLDDMA  694 (987)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHH
Confidence            4778899999999999999999999999998  466654 5555555666655543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.65  E-value=1.8e-13  Score=102.66  Aligned_cols=209  Identities=13%  Similarity=0.042  Sum_probs=158.3

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHH--HHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITY--NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      .+.|+++.|...+.++.+.  .|+....  ......+...|++++|...++++.+..+. ++.....+...|.+.|++++
T Consensus       129 ~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~  205 (398)
T PRK10747        129 QQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSS  205 (398)
T ss_pred             HHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHH
Confidence            3568888888888888765  3443322  23366778888888888888888777633 67777788888888888888


Q ss_pred             HHHHHHHHHhcCCC-----------------------------------------ccHHHHHHHHHHHHhhCChhHHHHH
Q 027412           81 ATMMFSKMLEKGPK-----------------------------------------ANVVTYSCLIDGYFKSQNMKSAFDV  119 (223)
Q Consensus        81 a~~~~~~~~~~~~~-----------------------------------------~~~~~~~~l~~~~~~~~~~~~a~~~  119 (223)
                      |.+++..+.+.+..                                         .++.....+...+...|+.++|...
T Consensus       206 a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~  285 (398)
T PRK10747        206 LLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQI  285 (398)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            88777777654322                                         1333455667788889999999999


Q ss_pred             HHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCC
Q 027412          120 YEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIM  199 (223)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  199 (223)
                      +++..+.  +++....  ++.+....++.+++.+..+...+..+ -|...+..+...+.+.+++++|.+.|+.+.+  ..
T Consensus       286 L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P-~~~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~  358 (398)
T PRK10747        286 ILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHG-DTPLLWSTLGQLLMKHGEWQEASLAFRAALK--QR  358 (398)
T ss_pred             HHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cC
Confidence            9988873  5565332  23334456899999999999888776 4778889999999999999999999999998  58


Q ss_pred             CchhhHHHHhhhHhhcCCCccc
Q 027412          200 PDGLLLSTLADYNLQSSGSQEH  221 (223)
Q Consensus       200 p~~~~~~~l~~~~~~~~~~~~~  221 (223)
                      |+..++..+...+.+.|..+++
T Consensus       359 P~~~~~~~La~~~~~~g~~~~A  380 (398)
T PRK10747        359 PDAYDYAWLADALDRLHKPEEA  380 (398)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHH
Confidence            9999989898888888876654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.64  E-value=3.3e-13  Score=113.48  Aligned_cols=189  Identities=11%  Similarity=0.026  Sum_probs=144.9

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      ...|++++|++.|++..+..+. +...+..+..+|.+.|++++|...++++.+..+. +...+..+...+...++.++|.
T Consensus       472 ~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al  549 (1157)
T PRK11447        472 ENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAAL  549 (1157)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHH
Confidence            4579999999999999887533 5778888999999999999999999998875432 4444433334444455555554


Q ss_pred             HHHHHHHh----------------------------------------cCCCccHHHHHHHHHHHHhhCChhHHHHHHHH
Q 027412           83 MMFSKMLE----------------------------------------KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE  122 (223)
Q Consensus        83 ~~~~~~~~----------------------------------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  122 (223)
                      ..++.+..                                        ..+ .+...+..+...+.+.|++++|+..|++
T Consensus       550 ~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p-~~~~~~~~La~~~~~~g~~~~A~~~y~~  628 (1157)
T PRK11447        550 AHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQP-PSTRIDLTLADWAQQRGDYAAARAAYQR  628 (1157)
T ss_pred             HHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCC-CCchHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            44433211                                        122 3556677788899999999999999999


Q ss_pred             HHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          123 MCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       123 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      +.+.. |.+...+..++..+...|++++|.+.++...+..+ .+...+..+..++...|++++|.++++++...
T Consensus       629 al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        629 VLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATAN-DSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCC-CChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            99875 66788999999999999999999999998876544 35667777888899999999999999999875

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

Probab=99.64  E-value=3.7e-13  Score=93.65  Aligned_cols=189  Identities=15%  Similarity=0.200  Sum_probs=95.6

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC---cHHHHHHHHHHHHhcCChhHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP---NSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      .++.++|.++|-+|.+... -+..+.-+|.+.|.+.|..++|+++.+.+.++.--+   -..+...|..-|...|-++.|
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 SNQPDKAVDLFLEMLQEDP-ETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcCc-hhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            3455666666666655432 244555556666666666666666666555421000   012233344445555555555


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCC---------------------------------------hhHHHHHHHH
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQN---------------------------------------MKSAFDVYEE  122 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------------------------------------~~~a~~~~~~  122 (223)
                      +.+|..+...+. .-......|+..|-...+                                       .+.|..++++
T Consensus       127 E~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         127 EDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            555554443321 123334444444444444                                       4444444444


Q ss_pred             HHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          123 MCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       123 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      ..+.+ +..+..-..+.+.....|++++|.+.++...+.++.--+.+...|..+|.+.|+.++....+.++.+.
T Consensus       206 Alqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~  278 (389)
T COG2956         206 ALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET  278 (389)
T ss_pred             HHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            44433 33333444455555566666666666666665554444455566666666666666666666555554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.62  E-value=8.5e-13  Score=106.68  Aligned_cols=205  Identities=14%  Similarity=0.038  Sum_probs=164.1

Q ss_pred             ccccCHHHHHHHHHHHhhCCCC-cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC---cHHHHHHHHHHHHhcCCh
Q 027412            3 IKECHLDAALKLFGQLTDRGLE-PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP---NSITFTILIDAFCKEGRM   78 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~   78 (223)
                      ...|++++|+..|+.+.+.+.+ |+ .....+...|...|++++|+.+|+++.+.....   .......+..++.+.|++
T Consensus       248 l~~g~~~eA~~~~~~ll~~~~~~P~-~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~  326 (765)
T PRK10049        248 LARDRYKDVISEYQRLKAEGQIIPP-WAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENY  326 (765)
T ss_pred             HHhhhHHHHHHHHHHhhccCCCCCH-HHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccH
Confidence            4568899999999999887532 32 223335778999999999999999987654221   134566677788999999


Q ss_pred             hHHHHHHHHHHhcCCC-----------cc---HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh
Q 027412           79 DDATMMFSKMLEKGPK-----------AN---VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK  144 (223)
Q Consensus        79 ~~a~~~~~~~~~~~~~-----------~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  144 (223)
                      ++|..+++.+....+.           |+   ...+..+...+...|++++|+..++++.... |.+...+..++..+..
T Consensus       327 ~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~  405 (765)
T PRK10049        327 PGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQA  405 (765)
T ss_pred             HHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            9999999999876431           22   2345667888999999999999999998874 7778899999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhH
Q 027412          145 RGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN  212 (223)
Q Consensus       145 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  212 (223)
                      .|++++|++.+++.....+ .+...+...+..+...|++++|..+++++++  ..|+......+-+..
T Consensus       406 ~g~~~~A~~~l~~al~l~P-d~~~l~~~~a~~al~~~~~~~A~~~~~~ll~--~~Pd~~~~~~~~~~~  470 (765)
T PRK10049        406 RGWPRAAENELKKAEVLEP-RNINLEVEQAWTALDLQEWRQMDVLTDDVVA--REPQDPGVQRLARAR  470 (765)
T ss_pred             cCCHHHHHHHHHHHHhhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            9999999999999998765 3567778888899999999999999999998  477776666555444

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

Probab=99.61  E-value=4.7e-13  Score=93.15  Aligned_cols=178  Identities=16%  Similarity=0.107  Sum_probs=125.6

Q ss_pred             hcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCc---cHHHHHHHHHHHHhhCChhH
Q 027412           39 SLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKA---NVVTYSCLIDGYFKSQNMKS  115 (223)
Q Consensus        39 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~  115 (223)
                      -.++.++|.++|-+|.+.... +..+--.|.+.|.+.|..++|+++.+.+..+.--+   -......|..=|...|-++.
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d~~-t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hhcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            357899999999999976433 55667789999999999999999999887652111   12356668888999999999


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHH------------------
Q 027412          116 AFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDV----VTYAIL------------------  173 (223)
Q Consensus       116 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l------------------  173 (223)
                      |+.+|..+.+.+ ..-......|+..|....+|++|+++-+++.+.+..+..    ..|..+                  
T Consensus       126 AE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~  204 (389)
T COG2956         126 AEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLK  204 (389)
T ss_pred             HHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            999999998765 455677888888888888888888888877766544321    123333                  


Q ss_pred             ----------------HHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCC
Q 027412          174 ----------------IRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGS  218 (223)
Q Consensus       174 ----------------~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  218 (223)
                                      .+.....|++++|.+.++...+.+..--+.+...|..+|.+.|..
T Consensus       205 kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~  265 (389)
T COG2956         205 KALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKP  265 (389)
T ss_pred             HHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCH
Confidence                            344455566666666666666554333345555555555555543

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

Probab=99.61  E-value=1.4e-12  Score=94.83  Aligned_cols=209  Identities=12%  Similarity=0.050  Sum_probs=177.2

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      .-.++.++|+..|++..+.+.. ...+|+.+..-|...++...|++-++.+.+.++ .|-..|..|+++|.-.+.+.=|+
T Consensus       341 Slr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p-~DyRAWYGLGQaYeim~Mh~YaL  418 (559)
T KOG1155|consen  341 SLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDINP-RDYRAWYGLGQAYEIMKMHFYAL  418 (559)
T ss_pred             HHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCc-hhHHHHhhhhHHHHHhcchHHHH
Confidence            3457889999999999988633 677899999999999999999999999998874 48899999999999999999999


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC-
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN-  161 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  161 (223)
                      -.|++.....|. |...|.+|..+|.+.++.++|+..|......| ..+...+..+...|-+.++.++|...|++..+. 
T Consensus       419 yYfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~  496 (559)
T KOG1155|consen  419 YYFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVS  496 (559)
T ss_pred             HHHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            999999988776 89999999999999999999999999999877 456689999999999999999999999887652 


Q ss_pred             ---C-CCC-CHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCC
Q 027412          162 ---H-LLP-DVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSG  217 (223)
Q Consensus       162 ---~-~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  217 (223)
                         | ..| .......|...+.+.+++++|..+.......  .+...--..|++.+.+...
T Consensus       497 ~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~--~~e~eeak~LlReir~~~~  555 (559)
T KOG1155|consen  497 ELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG--ETECEEAKALLREIRKIQA  555 (559)
T ss_pred             HhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC--CchHHHHHHHHHHHHHhcC
Confidence               2 223 2334455778889999999999888777653  6777777788877766544

>TIGR00540 hemY_coli hemY protein

Probab=99.61  E-value=5e-13  Score=100.69  Aligned_cols=123  Identities=15%  Similarity=-0.038  Sum_probs=89.7

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhH---HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHH
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVS---YSILIDGLCKRGLMEEALYAFHCALDNHLLPDV--VTY  170 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~  170 (223)
                      ++..+..+...+...|++++|.+.+++..+..  ||...   ...........++.+.+.+.++...+..+ -|+  ...
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p-~~~~~~ll  338 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVD-DKPKCCIN  338 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCC-CChhHHHH
Confidence            55666777788888889999999998888763  33321   11122222345777888888888777654 355  667


Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCccc
Q 027412          171 AILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  221 (223)
Q Consensus       171 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~~  221 (223)
                      .++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.+++
T Consensus       339 ~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A  389 (409)
T TIGR00540       339 RALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEA  389 (409)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHH
Confidence            789999999999999999999544444689999999999999888876654

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.

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

Probab=99.61  E-value=1.6e-12  Score=86.54  Aligned_cols=187  Identities=16%  Similarity=0.020  Sum_probs=143.0

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHH
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (223)
                      .+...|.-.|...|+...|..-+++..+..+. +..+|..+...|.+.|+.+.|.+.|++..+..+. +..+.|.....+
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FL  113 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHH
Confidence            34566777888888888888888888877533 5677888888888888888888888888888776 778888888888


Q ss_pred             HhhCChhHHHHHHHHHHHCC-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchH
Q 027412          108 FKSQNMKSAFDVYEEMCENN-ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEA  186 (223)
Q Consensus       108 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  186 (223)
                      +..|++++|...|++....- +..-..+|..+..+..+.|+.+.|.+.|++.++..+. ...+...+.......|++-.|
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHH
Confidence            88888888888888887642 2233567888888888888888888888888877653 445667777888888888888


Q ss_pred             HHHHHHHHHCCCCCchhhHHHHhhhHhhcCCC
Q 027412          187 MQLYDSMLRNGIMPDGLLLSTLADYNLQSSGS  218 (223)
Q Consensus       187 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  218 (223)
                      ..+++.....+. ++..+....|+.--+.|+.
T Consensus       193 r~~~~~~~~~~~-~~A~sL~L~iriak~~gd~  223 (250)
T COG3063         193 RLYLERYQQRGG-AQAESLLLGIRIAKRLGDR  223 (250)
T ss_pred             HHHHHHHHhccc-ccHHHHHHHHHHHHHhccH
Confidence            888888777654 7777766666655555543

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

Probab=99.60  E-value=3.6e-12  Score=84.85  Aligned_cols=201  Identities=15%  Similarity=0.065  Sum_probs=172.9

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      |.+.|++..|..-+++.++.++. +..+|..+...|.+.|+.+.|.+-|++.....+. +-.+.|.....+|..|.+++|
T Consensus        45 YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC~qg~~~eA  122 (250)
T COG3063          45 YLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLCAQGRPEEA  122 (250)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHHhCCChHHH
Confidence            67889999999999999998633 6789999999999999999999999999988644 778899999999999999999


Q ss_pred             HHHHHHHHhcCC-CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           82 TMMFSKMLEKGP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        82 ~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      ...|++....-. ..-..+|..+.-+..+.|+.+.|...|++..+.+ +....+...+.....+.|++-.|...++....
T Consensus       123 ~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~  201 (250)
T COG3063         123 MQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPARLYLERYQQ  201 (250)
T ss_pred             HHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHHHHHHHHHh
Confidence            999999887521 1235688999999999999999999999999875 56677888999999999999999999999888


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHH
Q 027412          161 NHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTL  208 (223)
Q Consensus       161 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  208 (223)
                      .+. ++..+....|+.-...|+.+.+-++=..+.+  .-|...-|...
T Consensus       202 ~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r--~fP~s~e~q~f  246 (250)
T COG3063         202 RGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR--LFPYSEEYQTF  246 (250)
T ss_pred             ccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCcHHHHhH
Confidence            776 8999999999999999999988887777776  36666655543

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

Probab=99.59  E-value=2.4e-13  Score=102.56  Aligned_cols=197  Identities=18%  Similarity=0.161  Sum_probs=168.8

Q ss_pred             CcccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH
Q 027412            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         1 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      ||.-.++.+.|++.|++..+.+. ....+|+.+..-+....++|.|...|+........ +-.+|..++..|.+.++++.
T Consensus       430 cfSLQkdh~~Aik~f~RAiQldp-~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-hYnAwYGlG~vy~Kqek~e~  507 (638)
T KOG1126|consen  430 CFSLQKDHDTAIKCFKRAIQLDP-RFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-HYNAWYGLGTVYLKQEKLEF  507 (638)
T ss_pred             hhhhhhHHHHHHHHHHHhhccCC-ccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-hhHHHHhhhhheeccchhhH
Confidence            45667899999999999998742 26889999999999999999999999999755422 45577788999999999999


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      |+-.|++....+|. +.+....++..+.+.|+.++|+++++++...+ +-|+..-...+..+...+++++|+..++++++
T Consensus       508 Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~  585 (638)
T KOG1126|consen  508 AEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYHRASILFSLGRYVEALQELEELKE  585 (638)
T ss_pred             HHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            99999999999887 88888889999999999999999999999876 66777777788889999999999999999988


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhh
Q 027412          161 NHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLL  204 (223)
Q Consensus       161 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  204 (223)
                      .-+ .+...+..+...|.+.|+.+.|+.-|.-+.+.  .|...-
T Consensus       586 ~vP-~es~v~~llgki~k~~~~~~~Al~~f~~A~~l--dpkg~~  626 (638)
T KOG1126|consen  586 LVP-QESSVFALLGKIYKRLGNTDLALLHFSWALDL--DPKGAQ  626 (638)
T ss_pred             hCc-chHHHHHHHHHHHHHHccchHHHHhhHHHhcC--CCccch
Confidence            644 36678889999999999999999999888874  554433

>PF13041 PPR_2: PPR repeat family

Probab=99.57  E-value=1.1e-14  Score=75.89  Aligned_cols=50  Identities=46%  Similarity=0.785  Sum_probs=34.9

Q ss_pred             CCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhh
Q 027412          165 PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQ  214 (223)
Q Consensus       165 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  214 (223)
                      ||..+|+.++.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            56667777777777777777777777777777777777777777776653

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

Probab=99.55  E-value=4.1e-11  Score=85.74  Aligned_cols=213  Identities=15%  Similarity=0.109  Sum_probs=170.4

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      .|+|..|.++..+-.+.+.. ....|..-+.+--..|+.+.+-.++.+..+....++....-.........|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            58999999999887776644 34466667777788899999999999988775566677777777888888999999998


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCC----------------------------------
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP----------------------------------  130 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----------------------------------  130 (223)
                      ++++...++. ++........+|.+.|++.....++.++.+.+.-.                                  
T Consensus       176 v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            8888888776 67788888899999999988888888887765422                                  


Q ss_pred             -------ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC------------------------------CHHHHHHH
Q 027412          131 -------NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLP------------------------------DVVTYAIL  173 (223)
Q Consensus       131 -------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------------------------------~~~~~~~l  173 (223)
                             ++..-..++.-+..+|+.++|.++.++..+.+..|                              ++..+.++
T Consensus       255 ~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tL  334 (400)
T COG3071         255 QPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTL  334 (400)
T ss_pred             ccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHH
Confidence                   23344566777788899999999888877665332                              55778899


Q ss_pred             HHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCccc
Q 027412          174 IRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  221 (223)
Q Consensus       174 ~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~~  221 (223)
                      ...|.+.+.|.+|...|+...+  ..|+..+|..+..++.+.|....+
T Consensus       335 G~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A  380 (400)
T COG3071         335 GRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEA  380 (400)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHH
Confidence            9999999999999999998887  589999999999999988876543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.54  E-value=4e-11  Score=86.51  Aligned_cols=194  Identities=14%  Similarity=0.012  Sum_probs=90.5

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      +.|++++|+..|++..+..+ .+...|+.+...+...|++++|...|++..+..+. +..++..+..++...|++++|.+
T Consensus        76 ~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~  153 (296)
T PRK11189         76 SLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQD  153 (296)
T ss_pred             HCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHH
Confidence            34555555555555544431 23445555555555555555555555555444322 33444445555555555555555


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh---
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD---  160 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---  160 (223)
                      .|++..+.++. +.. .......+...+++++|...+++..... +++...+ .  ......|+...+ +.+..+.+   
T Consensus       154 ~~~~al~~~P~-~~~-~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~  226 (296)
T PRK11189        154 DLLAFYQDDPN-DPY-RALWLYLAESKLDPKQAKENLKQRYEKL-DKEQWGW-N--IVEFYLGKISEE-TLMERLKAGAT  226 (296)
T ss_pred             HHHHHHHhCCC-CHH-HHHHHHHHHccCCHHHHHHHHHHHHhhC-CccccHH-H--HHHHHccCCCHH-HHHHHHHhcCC
Confidence            55555544332 111 1111112223344555555554433221 1111111 1  111223333222 12222221   


Q ss_pred             CCCC---CCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHH
Q 027412          161 NHLL---PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLST  207 (223)
Q Consensus       161 ~~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  207 (223)
                      ..+.   .....|..+...+...|++++|...|++..+.+ .||..-+..
T Consensus       227 ~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~~~e~~~  275 (296)
T PRK11189        227 DNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VYNFVEHRY  275 (296)
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CchHHHHHH
Confidence            1100   123568888899999999999999999999853 335444443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.54  E-value=1.5e-12  Score=94.15  Aligned_cols=121  Identities=18%  Similarity=0.177  Sum_probs=97.3

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIR  175 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  175 (223)
                      +..++..++.+.++--..+.|.+++++......+.+..+||.+|.+-.-.-+    .++..+|....+.||..|+|+++.
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHH
Confidence            6678888888888888888888888888876668888888888876544322    667788888888889999999998


Q ss_pred             HHHhcCCcch----HHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCcc
Q 027412          176 GYCKAGRPTE----AMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       176 ~~~~~g~~~~----a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  220 (223)
                      +..+-|+++.    |.+++.+|.+-|+.|+..+|..+|..+++.++.+.
T Consensus       282 c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k  330 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQK  330 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchh
Confidence            8888887764    55677888888899998899888888888877643

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

Probab=99.53  E-value=6.7e-13  Score=92.77  Aligned_cols=190  Identities=15%  Similarity=0.088  Sum_probs=132.4

Q ss_pred             CcccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH
Q 027412            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         1 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      ||.+.|.+.+|.+.|+...+.  .|-+.+|..|..+|.+..+...|+.++.+-.+.- +-++.....+.+.+...++.++
T Consensus       232 CylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~eam~~~~~  308 (478)
T KOG1129|consen  232 CYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEAMEQQED  308 (478)
T ss_pred             HHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHHHHhHHH
Confidence            467888999999999887776  5677889999999999999999999988877552 3355555566777777778888


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      |.++++...+..+. ++....++...|.-.++++.|+.++..+...| ..++..|+.+..+|.-.+++|-++..|++...
T Consensus       309 a~~lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG-~~speLf~NigLCC~yaqQ~D~~L~sf~RAls  386 (478)
T KOG1129|consen  309 ALQLYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMG-AQSPELFCNIGLCCLYAQQIDLVLPSFQRALS  386 (478)
T ss_pred             HHHHHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhc-CCChHHHhhHHHHHHhhcchhhhHHHHHHHHh
Confidence            88888777776554 66666667777777777777777777777777 45567777777777777777777777776664


Q ss_pred             CCCCCC--HHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          161 NHLLPD--VVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       161 ~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      .--.|+  ...|..+....+..|++..|.+.|+-.+.
T Consensus       387 tat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~  423 (478)
T KOG1129|consen  387 TATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALT  423 (478)
T ss_pred             hccCcchhhhhhhccceeEEeccchHHHHHHHHHHhc
Confidence            322222  23455555555555555555555555444

>PF13041 PPR_2: PPR repeat family

Probab=99.52  E-value=5.3e-14  Score=73.23  Aligned_cols=41  Identities=39%  Similarity=0.757  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHH
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILI  139 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  139 (223)
                      +|+.++.+|++.|++++|.++|++|.+.|++||..||+.++
T Consensus         5 ~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li   45 (50)
T PF13041_consen    5 TYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILI   45 (50)
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            33333333333333333333333333333333333333333

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.51  E-value=2.6e-11  Score=97.45  Aligned_cols=202  Identities=11%  Similarity=0.079  Sum_probs=167.5

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCC-----CCCcHHHHHHHHHHHHhcC
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-----LKPNSITFTILIDAFCKEG   76 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~   76 (223)
                      +...|++.++++.|+.+...+.+....+-..+.++|...+++++|..+|..+....     ..++......|.-++...+
T Consensus       302 L~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e  381 (822)
T PRK14574        302 LLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESE  381 (822)
T ss_pred             HHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcc
Confidence            55778999999999999988877677788999999999999999999999997643     1234444678899999999


Q ss_pred             ChhHHHHHHHHHHhcCC-----------Ccc--H-HHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           77 RMDDATMMFSKMLEKGP-----------KAN--V-VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        77 ~~~~a~~~~~~~~~~~~-----------~~~--~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      ++++|..+++++.+..|           .|+  - ..+..++..+...|+..+|++.++++.... |-|......+...+
T Consensus       382 ~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~  460 (822)
T PRK14574        382 QLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIY  460 (822)
T ss_pred             cHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            99999999999987433           122  2 234556788899999999999999998875 88999999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHH
Q 027412          143 CKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLST  207 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  207 (223)
                      ...|.+.+|.+.++......+ -+..+....+.++...+++++|..+.+.+...  .|+......
T Consensus       461 ~~Rg~p~~A~~~~k~a~~l~P-~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~--~Pe~~~~~~  522 (822)
T PRK14574        461 LARDLPRKAEQELKAVESLAP-RSLILERAQAETAMALQEWHQMELLTDDVISR--SPEDIPSQE  522 (822)
T ss_pred             HhcCCHHHHHHHHHHHhhhCC-ccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--CCCchhHHH
Confidence            999999999999988776654 46778888899999999999999999999874  666554443

>TIGR00540 hemY_coli hemY protein

Probab=99.47  E-value=1.2e-10  Score=88.02  Aligned_cols=189  Identities=12%  Similarity=0.109  Sum_probs=123.4

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      ..|+++.|.+.+.+..+..  |+ ...+-....+....|+.+.|.+.+.+..+....+...........+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            4688999999998877653  33 33445556777888999999999998876543333334444577788889999999


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHH-HHHHHH---HhcCCHHHHHHHHHHH
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYS-ILIDGL---CKRGLMEEALYAFHCA  158 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~~~~a~~~~~~~  158 (223)
                      ..++.+.+..|. ++..+..+...+...|+++++.+.+..+.+.+.. +...+. .-..++   ...+..+++.+.+..+
T Consensus       174 ~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       174 HGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            999999888776 7778888899999999999999988888877533 222221 111111   2222222223333333


Q ss_pred             HhCCCC---CCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          159 LDNHLL---PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       159 ~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      .+..+.   .++..+..++..+...|++++|.+++++..+.
T Consensus       252 ~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~  292 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK  292 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh
Confidence            332221   25566666666666666666666666666663

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=99.47  E-value=9.5e-11  Score=88.10  Aligned_cols=205  Identities=15%  Similarity=0.122  Sum_probs=143.5

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHH-HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHH--HHHHHHHHHHhcCChhH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIIT-YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI--TFTILIDAFCKEGRMDD   80 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~   80 (223)
                      -.|+++.|.+.+....+..  +++.. +........+.|+++.|...+.++.+.  .|+..  ........+...|+++.
T Consensus        96 ~eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~  171 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHA  171 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHH
Confidence            3699999998888766642  23333 334455558999999999999999876  44443  22234678889999999


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCC------------------------------
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP------------------------------  130 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------------------------------  130 (223)
                      |...++++.+..|. ++.....+...|.+.|++++|..++..+.+.+..+                              
T Consensus       172 Al~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~  250 (398)
T PRK10747        172 ARHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKR  250 (398)
T ss_pred             HHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            99999999999877 78899999999999999999998888887654221                              


Q ss_pred             -----------ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCC
Q 027412          131 -----------NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIM  199 (223)
Q Consensus       131 -----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  199 (223)
                                 ++.....+...+...|+.++|.+.+++..+..  |+....  ++.+....++.+++.+..+...+.  .
T Consensus       251 ~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~--~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~--~  324 (398)
T PRK10747        251 WWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQ--YDERLV--LLIPRLKTNNPEQLEKVLRQQIKQ--H  324 (398)
T ss_pred             HHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCHHHH--HHHhhccCCChHHHHHHHHHHHhh--C
Confidence                       22333455666677778888888777777643  344322  223333457777777777777764  5


Q ss_pred             Cchhh-HHHHhhhHhhcCCCc
Q 027412          200 PDGLL-LSTLADYNLQSSGSQ  219 (223)
Q Consensus       200 p~~~~-~~~l~~~~~~~~~~~  219 (223)
                      |+... ...+-..|.+.+.+.
T Consensus       325 P~~~~l~l~lgrl~~~~~~~~  345 (398)
T PRK10747        325 GDTPLLWSTLGQLLMKHGEWQ  345 (398)
T ss_pred             CCCHHHHHHHHHHHHHCCCHH
Confidence            55544 445555566655544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.46  E-value=6.2e-11  Score=95.35  Aligned_cols=184  Identities=15%  Similarity=0.066  Sum_probs=144.6

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      ++.|+++.|++.|++..+..+.-....+ .++..+...|+.++|+.++++..... .........+...+...|++++|+
T Consensus        45 ~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~gdyd~Ai  122 (822)
T PRK14574         45 ARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEKRWDQAL  122 (822)
T ss_pred             HhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            5789999999999999887433112344 88888889999999999999998221 223444444567888899999999


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ++++++.+..|. ++..+..++..+...++.++|+..++++...  .|+...+..++..+...++..+|++.++++.+..
T Consensus       123 ely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~  199 (822)
T PRK14574        123 ALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA  199 (822)
T ss_pred             HHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC
Confidence            999999999887 6788888889999999999999999999875  4555555555555555667767999999999887


Q ss_pred             CCCCHHHHHHHHHHHHhcCCcchHHHHHHH
Q 027412          163 LLPDVVTYAILIRGYCKAGRPTEAMQLYDS  192 (223)
Q Consensus       163 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  192 (223)
                      + .+...+..+..++.+.|-...|.++..+
T Consensus       200 P-~n~e~~~~~~~~l~~~~~~~~a~~l~~~  228 (822)
T PRK14574        200 P-TSEEVLKNHLEILQRNRIVEPALRLAKE  228 (822)
T ss_pred             C-CCHHHHHHHHHHHHHcCCcHHHHHHHHh
Confidence            5 4778888899999999999888877765

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.46  E-value=1.6e-10  Score=93.66  Aligned_cols=110  Identities=13%  Similarity=0.100  Sum_probs=53.2

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      +.|++++|+++|++..+.. +.+...+..++.++...|++++|...++++.+..+ .+.. +..+..++...|+.++|+.
T Consensus        61 ~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P-~~~~-~~~la~~l~~~g~~~~Al~  137 (765)
T PRK10049         61 NLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAP-DKAN-LLALAYVYKRAGRHWDELR  137 (765)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHH-HHHHHHHHHHCCCHHHHHH
Confidence            3455555555555554442 22344444555555555555555555555544421 1333 4445555555555555555


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHH
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAF  117 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  117 (223)
                      .++++.+..|. +...+..+..++...+..++|+
T Consensus       138 ~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al  170 (765)
T PRK10049        138 AMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPAL  170 (765)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHH
Confidence            55555555444 3444444444444444444333

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

Probab=99.44  E-value=7.4e-11  Score=87.97  Aligned_cols=206  Identities=15%  Similarity=0.096  Sum_probs=168.1

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      -.|++.+|+..|.+....+.. =...|..+...|+-.|..++|+..+..+.+.=.. ....+--+..-|.+.++.+.|.+
T Consensus       324 ~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G-~hlP~LYlgmey~~t~n~kLAe~  401 (611)
T KOG1173|consen  324 MIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPG-CHLPSLYLGMEYMRTNNLKLAEK  401 (611)
T ss_pred             HhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccC-CcchHHHHHHHHHHhccHHHHHH
Confidence            347889999999887765422 2457889999999999999999988887654211 22223336667888999999999


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC----C--CCCChhHHHHHHHHHHhcCCHHHHHHHHHH
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN----N--ISPNIVSYSILIDGLCKRGLMEEALYAFHC  157 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  157 (223)
                      +|.+.....|. |+...+-+.-.....+.+.+|..+|+.....    +  .+.-..+++.|..+|.+.+.+++|+..+++
T Consensus       402 Ff~~A~ai~P~-Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~  480 (611)
T KOG1173|consen  402 FFKQALAIAPS-DPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQK  480 (611)
T ss_pred             HHHHHHhcCCC-cchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHH
Confidence            99999988776 8999999999999999999999999988722    0  111345689999999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhc
Q 027412          158 ALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQS  215 (223)
Q Consensus       158 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  215 (223)
                      .+...+ .+..++..+.-.|...|+++.|...|.+.+-  +.|+..+...+++.++..
T Consensus       481 aL~l~~-k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  481 ALLLSP-KDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAIED  535 (611)
T ss_pred             HHHcCC-CchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHHHh
Confidence            998766 5899999999999999999999999999886  799998888888877665

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

Probab=99.42  E-value=9.7e-11  Score=85.77  Aligned_cols=204  Identities=19%  Similarity=0.174  Sum_probs=112.8

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      +|++++|.+.|++....+..- ......+.-.+-..|++++|++.|-++...- ..+..+...+...|-...+...|+++
T Consensus       503 ngd~dka~~~ykeal~ndasc-~ealfniglt~e~~~~ldeald~f~klh~il-~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASC-TEALFNIGLTAEALGNLDEALDCFLKLHAIL-LNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHH-HHHHHHhcccHHHhcCHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            455666666665555432111 1122222233445556666666555543221 22444555555566666666666666


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL  164 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  164 (223)
                      +.+....-| .|+.....|...|-+.|+-..|++++-.-.+- +|-+..+...|...|....-+++++..|++..-  +.
T Consensus       581 ~~q~~slip-~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iq  656 (840)
T KOG2003|consen  581 LMQANSLIP-NDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQ  656 (840)
T ss_pred             HHHhcccCC-CCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cC
Confidence            655544422 25666666666666666666666655443332 355566666666666666667777777766543  34


Q ss_pred             CCHHHHHHHHHH-HHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhc
Q 027412          165 PDVVTYAILIRG-YCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQS  215 (223)
Q Consensus       165 ~~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  215 (223)
                      |+..-|..++.. +.+.|++++|+.+|+...+. ++-|.....-|++.+...
T Consensus       657 p~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dl  707 (840)
T KOG2003|consen  657 PNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDL  707 (840)
T ss_pred             ccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccc
Confidence            677777665544 34567777777777776653 445555555555555433

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.41  E-value=5.7e-11  Score=89.96  Aligned_cols=219  Identities=21%  Similarity=0.174  Sum_probs=160.0

Q ss_pred             cccccCHHHHHHHHHHHhhC-----CC-CcCHH-HHHHHHHHHHhcCchhHHHHHHHHHHhC-----CC-CC-cHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDR-----GL-EPDII-TYNTIICGYCSLNRLDEAVQLFEKLTCV-----QL-KP-NSITFTI   67 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~-----~~-~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~-~~~~~~~   67 (223)
                      |...|+++.|+.+++...+.     |. -|... ..+.+...|...+++++|..+|+++...     |. .| -..+++.
T Consensus       209 y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~n  288 (508)
T KOG1840|consen  209 YAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNN  288 (508)
T ss_pred             HHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            67789999999999987764     21 12333 3445778999999999999999998653     21 12 2357888


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhc-----CC-Ccc-HHHHHHHHHHHHhhCChhHHHHHHHHHHHC---CCCC----Chh
Q 027412           68 LIDAFCKEGRMDDATMMFSKMLEK-----GP-KAN-VVTYSCLIDGYFKSQNMKSAFDVYEEMCEN---NISP----NIV  133 (223)
Q Consensus        68 l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~----~~~  133 (223)
                      |..+|.+.|++++|..++++....     +. .|. ...++.+...+...+++++|..+++...+.   -..+    -..
T Consensus       289 La~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~  368 (508)
T KOG1840|consen  289 LAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAK  368 (508)
T ss_pred             HHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHH
Confidence            999999999999999988876543     11 112 235677888899999999999999877643   1112    245


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC--CC-CHHHHHHHHHHHHhcCCcchHHHHHHHHHHC----CC-CCc
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALDN----HL--LP-DVVTYAILIRGYCKAGRPTEAMQLYDSMLRN----GI-MPD  201 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~--~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~-~p~  201 (223)
                      +++.+...|...|++++|.+++++++..    +.  .+ ....++.+...|.+.+++.+|.++|.+...-    |. .|+
T Consensus       369 ~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~  448 (508)
T KOG1840|consen  369 IYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPD  448 (508)
T ss_pred             HHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCc
Confidence            8899999999999999999999988742    11  12 2356788999999999999999999876532    32 233


Q ss_pred             -hhhHHHHhhhHhhcCCCcc
Q 027412          202 -GLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       202 -~~~~~~l~~~~~~~~~~~~  220 (223)
                       ..+|..|...|-+.|+.+.
T Consensus       449 ~~~~~~nL~~~Y~~~g~~e~  468 (508)
T KOG1840|consen  449 VTYTYLNLAALYRAQGNYEA  468 (508)
T ss_pred             hHHHHHHHHHHHHHcccHHH
Confidence             3577778888877776543

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

Probab=99.41  E-value=6e-10  Score=79.93  Aligned_cols=190  Identities=18%  Similarity=0.177  Sum_probs=122.4

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHH-------HHHHHHHH-----
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-------TFTILIDA-----   71 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~-----   71 (223)
                      ..|+++.|..-.+.+.+.+.. ++.......++|.+.|++.....++..+.+.+.-.++.       +|..+++-     
T Consensus       165 ~~~d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~  243 (400)
T COG3071         165 NRRDYPAARENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDN  243 (400)
T ss_pred             hCCCchhHHHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccc
Confidence            456677777777777766533 55667777777777777777777777776665333321       33333332     


Q ss_pred             -----------------------------HHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHH
Q 027412           72 -----------------------------FCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE  122 (223)
Q Consensus        72 -----------------------------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  122 (223)
                                                   +.++|+.++|.++..+..+++..|+    -.....+.+.+++..-.+..++
T Consensus       244 ~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~  319 (400)
T COG3071         244 GSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEK  319 (400)
T ss_pred             cchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHH
Confidence                                         3334444444444444444433322    1111223333444444444443


Q ss_pred             HHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc
Q 027412          123 MCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD  201 (223)
Q Consensus       123 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  201 (223)
                      -.+. .+.++..+..+...|.+.+.|.+|...|+...+.+  |+..+|+.+..++.+.|+..+|.+..++....-..|+
T Consensus       320 ~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~--~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         320 WLKQ-HPEDPLLLSTLGRLALKNKLWGKASEALEAALKLR--PSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HHHh-CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcC--CChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            3333 24466788999999999999999999999887764  7999999999999999999999999998875444444

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

Probab=99.41  E-value=2e-10  Score=84.20  Aligned_cols=183  Identities=19%  Similarity=0.212  Sum_probs=111.5

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      ..|++++|+++|-++...- ..+..+...+...|-...+..+|++++.+.... ++.|+.....|...|-+.|+-..|.+
T Consensus       536 ~~~~ldeald~f~klh~il-~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq  613 (840)
T KOG2003|consen  536 ALGNLDEALDCFLKLHAIL-LNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQ  613 (840)
T ss_pred             HhcCHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhh
Confidence            3466777777776655431 225566666667777777777777777665533 34466666777777777777777766


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHH-hcCCHHHHHHHHHHHHhCC
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLC-KRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~  162 (223)
                      .+-+.-+- .+.+..+..-|..-|....-+++++.+|++..-  +.|+..-|..++..|. +.|++.+|+.+|+...+. 
T Consensus       614 ~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-  689 (840)
T KOG2003|consen  614 CHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-  689 (840)
T ss_pred             hhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-
Confidence            65444333 223566666666666666667777777776655  4677777766665544 457777777777666543 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          163 LLPDVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       163 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                      ++.|......|++.+...|- .++.++-+++
T Consensus       690 fpedldclkflvri~~dlgl-~d~key~~kl  719 (840)
T KOG2003|consen  690 FPEDLDCLKFLVRIAGDLGL-KDAKEYADKL  719 (840)
T ss_pred             CccchHHHHHHHHHhccccc-hhHHHHHHHH
Confidence            33466666666666666653 2344444333

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.41  E-value=1.3e-10  Score=84.38  Aligned_cols=108  Identities=19%  Similarity=0.306  Sum_probs=62.3

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH--
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA--   81 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a--   81 (223)
                      +-...+.|.+++++......+.+..+||.+|.+-+-.    ...+++.+|......||..|+|.++.+..+.|+++.|  
T Consensus       219 K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~  294 (625)
T KOG4422|consen  219 KFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARK  294 (625)
T ss_pred             HHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHH
Confidence            3344556666666655554455666666665543322    2245556666666666666666666666666655443  


Q ss_pred             --HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhH
Q 027412           82 --TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKS  115 (223)
Q Consensus        82 --~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  115 (223)
                        .+++.+|.+.|+.|...+|..++..+.+.+++.+
T Consensus       295 aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k  330 (625)
T KOG4422|consen  295 AALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQK  330 (625)
T ss_pred             HHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchh
Confidence              3455566666666666666666666666655533

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

Probab=99.40  E-value=4.6e-11  Score=83.80  Aligned_cols=167  Identities=13%  Similarity=0.078  Sum_probs=147.0

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh
Q 027412           30 YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK  109 (223)
Q Consensus        30 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  109 (223)
                      -+.+..+|.+.|-+.+|.+.++.....  .|-+.||-.|-+.|.+..+++.|+.++.+-.+.-|. ++....-..+.+-.
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~-~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPF-DVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCc-hhhhhhhhHHHHHH
Confidence            368889999999999999999998876  567788888999999999999999999998886444 66666678899999


Q ss_pred             hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHH
Q 027412          110 SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQL  189 (223)
Q Consensus       110 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  189 (223)
                      .++.++|.++++...+.. +.++.....+...|.-.++++-|+..|+++++.|. .++..|+.+.-+|.-.++++-++..
T Consensus       303 m~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHH
Confidence            999999999999999875 77888888899999999999999999999999998 5899999999999999999999999


Q ss_pred             HHHHHHCCCCCc
Q 027412          190 YDSMLRNGIMPD  201 (223)
Q Consensus       190 ~~~~~~~~~~p~  201 (223)
                      |.+....--.|+
T Consensus       381 f~RAlstat~~~  392 (478)
T KOG1129|consen  381 FQRALSTATQPG  392 (478)
T ss_pred             HHHHHhhccCcc
Confidence            998886533344

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.36  E-value=1.3e-09  Score=78.69  Aligned_cols=154  Identities=15%  Similarity=0.044  Sum_probs=94.3

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +...|++++|+..|++..+..+. +..++..+..++...|++++|.+.+++..+..+. +. ........+...+++++|
T Consensus       108 ~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~-~~-~~~~~~~l~~~~~~~~~A  184 (296)
T PRK11189        108 LTQAGNFDAAYEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPN-DP-YRALWLYLAESKLDPKQA  184 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CH-HHHHHHHHHHccCCHHHH
Confidence            34678888888888888776422 4667777888888888888888888888776432 22 112222233445678888


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC---CC---CCChhHHHHHHHHHHhcCCHHHHHHHH
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN---NI---SPNIVSYSILIDGLCKRGLMEEALYAF  155 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~  155 (223)
                      ...|.+...... |+...+   .......|+...+ ..++.+.+.   ..   +....+|..+...+.+.|++++|...|
T Consensus       185 ~~~l~~~~~~~~-~~~~~~---~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~  259 (296)
T PRK11189        185 KENLKQRYEKLD-KEQWGW---NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALF  259 (296)
T ss_pred             HHHHHHHHhhCC-ccccHH---HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            888866554322 222222   2223334555443 244444321   10   123457788888888888888888888


Q ss_pred             HHHHhCCC
Q 027412          156 HCALDNHL  163 (223)
Q Consensus       156 ~~~~~~~~  163 (223)
                      ++..+.++
T Consensus       260 ~~Al~~~~  267 (296)
T PRK11189        260 KLALANNV  267 (296)
T ss_pred             HHHHHhCC
Confidence            88887665

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.36  E-value=1e-09  Score=76.89  Aligned_cols=170  Identities=17%  Similarity=0.131  Sum_probs=130.5

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC-C-cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccH--HHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK-P-NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANV--VTYS  101 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  101 (223)
                      ....+..+...+...|++++|...++++....+. | ...++..+..++...|++++|...++++.+..+....  .++.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            4667888888899999999999999998876432 1 1246677889999999999999999999987664222  2455


Q ss_pred             HHHHHHHhh--------CChhHHHHHHHHHHHCCCCCChhHH-----------------HHHHHHHHhcCCHHHHHHHHH
Q 027412          102 CLIDGYFKS--------QNMKSAFDVYEEMCENNISPNIVSY-----------------SILIDGLCKRGLMEEALYAFH  156 (223)
Q Consensus       102 ~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~~~~~~a~~~~~  156 (223)
                      .+..++...        |++++|.+.++.+.... +.+...+                 ..+...+.+.|++++|...++
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~  190 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY-PNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFE  190 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC-CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            566666654        78899999999998763 2222222                 245667888999999999999


Q ss_pred             HHHhCCCC--CCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          157 CALDNHLL--PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       157 ~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      ...+..+.  .....+..+..++...|++++|..+++.+...
T Consensus       191 ~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       191 TVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            99876431  24578899999999999999999999988764

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).

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

Probab=99.36  E-value=1.1e-09  Score=74.23  Aligned_cols=161  Identities=14%  Similarity=0.181  Sum_probs=125.4

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCCh
Q 027412           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM  113 (223)
Q Consensus        34 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  113 (223)
                      +..|...|+++.+....+.+..    |.        ..+...++.+++...++...+.++. +...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~~P~-~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCH
Confidence            4578888998887665543321    11        0122356778888888888888777 899999999999999999


Q ss_pred             hHHHHHHHHHHHCCCCCChhHHHHHHHHH-HhcCC--HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHH
Q 027412          114 KSAFDVYEEMCENNISPNIVSYSILIDGL-CKRGL--MEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLY  190 (223)
Q Consensus       114 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  190 (223)
                      ++|...|++..+.+ +.+...+..+..++ ...|+  .++|.+++++..+.++ .+...+..+...+.+.|++++|...|
T Consensus        90 ~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP-~~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         90 DNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDA-NEVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC-CChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999875 66788888888864 67677  5999999999998877 37888999999999999999999999


Q ss_pred             HHHHHCCCCCchhhHHHHhhh
Q 027412          191 DSMLRNGIMPDGLLLSTLADY  211 (223)
Q Consensus       191 ~~~~~~~~~p~~~~~~~l~~~  211 (223)
                      +++.+. ..|+..-+..+ ++
T Consensus       168 ~~aL~l-~~~~~~r~~~i-~~  186 (198)
T PRK10370        168 QKVLDL-NSPRVNRTQLV-ES  186 (198)
T ss_pred             HHHHhh-CCCCccHHHHH-HH
Confidence            999885 34554444333 44

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

Probab=99.35  E-value=2.7e-10  Score=83.87  Aligned_cols=153  Identities=14%  Similarity=0.146  Sum_probs=113.9

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      .|+.-.|..-|+..+..... +...|..+..+|....+.++....|+...+.++. ++.+|..-.+.+.-.+++++|..=
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~-~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aD  416 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPA-FNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIAD  416 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcc-cchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHH
Confidence            56777777778877776433 2333777777788888888888888888777644 666676677777777788888888


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      |++..+.+|. +...|-.+.-+..+.+.+++++..|++.++. +|..+..|+.....+..++++++|.+.|+..++.
T Consensus       417 F~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  417 FQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            8888777666 6677777777777778888888888887765 5666778888888888888888888888877654

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

Probab=99.35  E-value=4.8e-10  Score=83.93  Aligned_cols=190  Identities=18%  Similarity=0.128  Sum_probs=154.7

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.++|++.+|.-.|+..++..+. +..+|..|...-...++-..|+..+.+..+..+. +..+.-.|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHHH
Confidence            46789999999999999888533 6889999999999999999999999998887643 667777777777776666666


Q ss_pred             HHHHHHHHhc------------------------------------------CCCccHHHHHHHHHHHHhhCChhHHHHH
Q 027412           82 TMMFSKMLEK------------------------------------------GPKANVVTYSCLIDGYFKSQNMKSAFDV  119 (223)
Q Consensus        82 ~~~~~~~~~~------------------------------------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~  119 (223)
                      ...++..+..                                          +..+|+.....|...|...|++++|...
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            6666544321                                          1124677788899999999999999999


Q ss_pred             HHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          120 YEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      |+.++... |.|...||-|...+++..+.++|+..|.++++..+. -+.+...|.-+|...|.+++|...|-..+.
T Consensus       453 f~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~-yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  453 FEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPG-YVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCC-eeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            99999875 677889999999999999999999999999987642 345677788899999999999999877663

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

Probab=99.34  E-value=2.1e-09  Score=84.34  Aligned_cols=116  Identities=16%  Similarity=0.224  Sum_probs=76.3

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      .|++++|..++.++++..+ .....|.+|..+|-..|+.+++...+-.+...++. |...|..+.....+.|++.+|.-.
T Consensus       152 rg~~eeA~~i~~EvIkqdp-~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~-d~e~W~~ladls~~~~~i~qA~~c  229 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDP-RNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK-DYELWKRLADLSEQLGNINQARYC  229 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCc-cchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHhcccHHHHHHH
Confidence            4999999999999988753 36778999999999999988888777666544433 557777777777777777777777


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHH
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  123 (223)
                      |.+.++..|. +...+-.-+..|-+.|+...|...|.++
T Consensus       230 y~rAI~~~p~-n~~~~~ers~L~~~~G~~~~Am~~f~~l  267 (895)
T KOG2076|consen  230 YSRAIQANPS-NWELIYERSSLYQKTGDLKRAMETFLQL  267 (895)
T ss_pred             HHHHHhcCCc-chHHHHHHHHHHHHhChHHHHHHHHHHH
Confidence            7666665443 3332222334444444444444444333

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

Probab=99.33  E-value=4.4e-11  Score=93.49  Aligned_cols=197  Identities=14%  Similarity=0.194  Sum_probs=134.7

Q ss_pred             HHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCC------------------------CCCcHHHHHHH
Q 027412           13 KLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ------------------------LKPNSITFTIL   68 (223)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------------------------~~~~~~~~~~l   68 (223)
                      .++-.+...|+.|+..+|..+|.-|+..|+.+.|- +|..|.-..                        -.|.+.+|..|
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~L   89 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNL   89 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHH
Confidence            34566777899999999999999999999999887 766664321                        13566799999


Q ss_pred             HHHHHhcCChhH---HHHHHHHHHh----cCCC-----------------ccHHHHHHHHHHHHhhCChhHHHHHH----
Q 027412           69 IDAFCKEGRMDD---ATMMFSKMLE----KGPK-----------------ANVVTYSCLIDGYFKSQNMKSAFDVY----  120 (223)
Q Consensus        69 ~~~~~~~~~~~~---a~~~~~~~~~----~~~~-----------------~~~~~~~~l~~~~~~~~~~~~a~~~~----  120 (223)
                      ..+|...||...   +.+.+..+..    .|..                 ||..+   .+....-.|-++.+.+++    
T Consensus        90 l~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~illlv~eglwaqllkll~~~P  166 (1088)
T KOG4318|consen   90 LKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---AILLLVLEGLWAQLLKLLAKVP  166 (1088)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---HHHHHHHHHHHHHHHHHHhhCC
Confidence            999999998654   2222222211    1211                 11110   111111122222222222    


Q ss_pred             ------------HHH-------------HHCCC-CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 027412          121 ------------EEM-------------CENNI-SPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILI  174 (223)
Q Consensus       121 ------------~~~-------------~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  174 (223)
                                  +++             .+... .|++.+|..++..-.-.|+.+.|..++.+|.+.|+.....-|..++
T Consensus       167 vsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl  246 (1088)
T KOG4318|consen  167 VSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLL  246 (1088)
T ss_pred             cccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhh
Confidence                        111             11111 4788899999999999999999999999999999977777777776


Q ss_pred             HHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcC
Q 027412          175 RGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSS  216 (223)
Q Consensus       175 ~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  216 (223)
                      .+   .++..-+..+++-|.+.|+.|+..|+..-+-.+..+|
T Consensus       247 ~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~  285 (1088)
T KOG4318|consen  247 LG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNG  285 (1088)
T ss_pred             hc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcch
Confidence            55   7888888899999999999999999987777766643

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.31  E-value=9.8e-10  Score=83.41  Aligned_cols=211  Identities=19%  Similarity=0.148  Sum_probs=154.6

Q ss_pred             cccccCHHHHHHHHHHHhhC-----CCC-c-CHHHHHHHHHHHHhcCchhHHHHHHHHHHhC-----C-CCCcH-HHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDR-----GLE-P-DIITYNTIICGYCSLNRLDEAVQLFEKLTCV-----Q-LKPNS-ITFTI   67 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~-----~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-~~~~~   67 (223)
                      |...+++++|..+|+++...     |.. | -..+++.|...|.+.|++++|...+++..+.     + ..|.+ ..++.
T Consensus       251 y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~  330 (508)
T KOG1840|consen  251 YRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSE  330 (508)
T ss_pred             HHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHH
Confidence            45678899999999988653     221 1 2456888889999999999998888877542     1 12222 34677


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhc---CCCc----cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC-------CCCChh
Q 027412           68 LIDAFCKEGRMDDATMMFSKMLEK---GPKA----NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN-------ISPNIV  133 (223)
Q Consensus        68 l~~~~~~~~~~~~a~~~~~~~~~~---~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~  133 (223)
                      +...+...+++++|..++.+..+.   -+.+    -..+++.|...|...|++++|.+++++++...       ......
T Consensus       331 ~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~  410 (508)
T KOG1840|consen  331 LAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGK  410 (508)
T ss_pred             HHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhH
Confidence            888888999999999999877653   1111    24689999999999999999999999987531       122245


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCC-C-CHHHHHHHHHHHHhcCCcchHHHHHHHHHHC------CCCCc
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALD----NHLL-P-DVVTYAILIRGYCKAGRPTEAMQLYDSMLRN------GIMPD  201 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~~p~  201 (223)
                      .++.+...|.+.+.+.+|.++|.+...    .|+. | ...+|..|...|...|+++.|.++.+.+...      +..|+
T Consensus       411 ~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~~~~~~~~~~~~  490 (508)
T KOG1840|consen  411 PLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNAREQRLGTASPT  490 (508)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcCCCCCcc
Confidence            778899999999999999999887653    2321 2 3568999999999999999999999887622      23455


Q ss_pred             hhhHHHHhhhH
Q 027412          202 GLLLSTLADYN  212 (223)
Q Consensus       202 ~~~~~~l~~~~  212 (223)
                      ..........+
T Consensus       491 ~~~~~~~~~~~  501 (508)
T KOG1840|consen  491 VEDEKLRLADL  501 (508)
T ss_pred             hhHHHHhhhHH
Confidence            55544444433

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

Probab=99.30  E-value=5.6e-10  Score=82.23  Aligned_cols=187  Identities=18%  Similarity=0.187  Sum_probs=152.9

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      |....+-++....|+...+.+.. ++.+|..-.++..-.+++++|..=|++..+..+. +...|-.+.-+..+.+.++++
T Consensus       370 y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~  447 (606)
T KOG0547|consen  370 YADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPE-NAYAYIQLCCALYRQHKIAES  447 (606)
T ss_pred             HhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHH
Confidence            55677888889999998887644 6778888888888899999999999999887643 667777777777889999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC-------hh--HHHHHHHHHHhcCCHHHHH
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN-------IV--SYSILIDGLCKRGLMEEAL  152 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~--~~~~l~~~~~~~~~~~~a~  152 (223)
                      ...|++..++-|. .+..|+....++...++++.|.+.|+..++.  .|+       ..  +...++. +.-.+++..|.
T Consensus       448 m~~Fee~kkkFP~-~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L--E~~~~~~~v~~~plV~Ka~l~-~qwk~d~~~a~  523 (606)
T KOG0547|consen  448 MKTFEEAKKKFPN-CPEVYNLFAEILTDQQQFDKAVKQYDKAIEL--EPREHLIIVNAAPLVHKALLV-LQWKEDINQAE  523 (606)
T ss_pred             HHHHHHHHHhCCC-CchHHHHHHHHHhhHHhHHHHHHHHHHHHhh--ccccccccccchhhhhhhHhh-hchhhhHHHHH
Confidence            9999999988665 7899999999999999999999999999874  232       11  1122222 22348999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          153 YAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      .++.+..+.+++ ....|..|...-.+.|+.++|+++|++...
T Consensus       524 ~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  524 NLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999999998774 667899999999999999999999998765

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.28  E-value=2.1e-09  Score=75.28  Aligned_cols=160  Identities=16%  Similarity=0.149  Sum_probs=123.0

Q ss_pred             cccccCHHHHHHHHHHHhhCCCC-c-CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcH--HHHHHHHHHHHhc--
Q 027412            2 LIKECHLDAALKLFGQLTDRGLE-P-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS--ITFTILIDAFCKE--   75 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~--   75 (223)
                      +.+.|+++.|+..|+++...... | ...++..+..++...|++++|...++++.+..+....  .++..+..++.+.  
T Consensus        43 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~  122 (235)
T TIGR03302        43 ALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQID  122 (235)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcc
Confidence            45789999999999999876322 1 1246788899999999999999999999876532221  2566666777654  


Q ss_pred             ------CChhHHHHHHHHHHhcCCCccHHHH-----------------HHHHHHHHhhCChhHHHHHHHHHHHCC--CCC
Q 027412           76 ------GRMDDATMMFSKMLEKGPKANVVTY-----------------SCLIDGYFKSQNMKSAFDVYEEMCENN--ISP  130 (223)
Q Consensus        76 ------~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~  130 (223)
                            |++++|.+.++.+....+. +...+                 ..+...+.+.|++++|...++.+.+..  -+.
T Consensus       123 ~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~  201 (235)
T TIGR03302       123 RVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPA  201 (235)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcc
Confidence                  7899999999999987665 32222                 235667888999999999999998762  123


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412          131 NIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus       131 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ....+..++.++...|++++|...++.+....
T Consensus       202 ~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       202 TEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            45788999999999999999999998887643

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).

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

Probab=99.28  E-value=1.3e-09  Score=73.82  Aligned_cols=154  Identities=13%  Similarity=0.177  Sum_probs=119.9

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      |...|+++.+....+.+...    .        ..+...++.+++...+++..+.+ +.+...|..+...|...|++++|
T Consensus        26 Y~~~g~~~~v~~~~~~~~~~----~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A   92 (198)
T PRK10370         26 YLLSPKWQAVRAEYQRLADP----L--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNA   92 (198)
T ss_pred             HHHcchHHHHHHHHHHHhCc----c--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            56677877765444332211    1        01223667788888888887776 34888999999999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHH-HhhCC--hhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGY-FKSQN--MKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      ...|++..+..+. +...+..+..++ ...|+  .++|..++++..+.+ +.+..++..+...+.+.|++++|...|+++
T Consensus        93 ~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370         93 LLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999998876 888888888864 67777  599999999999886 668889999999999999999999999999


Q ss_pred             HhCCCCCCHHHHH
Q 027412          159 LDNHLLPDVVTYA  171 (223)
Q Consensus       159 ~~~~~~~~~~~~~  171 (223)
                      .+..+ |+..-+.
T Consensus       171 L~l~~-~~~~r~~  182 (198)
T PRK10370        171 LDLNS-PRVNRTQ  182 (198)
T ss_pred             HhhCC-CCccHHH
Confidence            88765 4444333

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.28  E-value=2.1e-09  Score=69.12  Aligned_cols=94  Identities=17%  Similarity=0.046  Sum_probs=50.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC
Q 027412           67 ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG  146 (223)
Q Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  146 (223)
                      .+...+.+.|++++|...|+......+. +...|..+..++...|++++|...|+.....+ +.+...+..+..++...|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC
Confidence            3444555555555555555555555443 45555555555555555555555555555543 444555555555555555


Q ss_pred             CHHHHHHHHHHHHhCC
Q 027412          147 LMEEALYAFHCALDNH  162 (223)
Q Consensus       147 ~~~~a~~~~~~~~~~~  162 (223)
                      ++++|...|+...+..
T Consensus       107 ~~~eAi~~~~~Al~~~  122 (144)
T PRK15359        107 EPGLAREAFQTAIKMS  122 (144)
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            5555555555555443

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

Probab=99.26  E-value=7.2e-09  Score=70.67  Aligned_cols=165  Identities=15%  Similarity=0.050  Sum_probs=138.1

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (223)
                      |..+ ..+...+...|+-+....+..+..... ..|.......+....+.|++..|+..+++.....++ |..+|+.+..
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~-d~~~~~~lga  142 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPT-DWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCC-ChhhhhHHHH
Confidence            4444 666777778888888888877765332 336667777899999999999999999999988765 9999999999


Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcch
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTE  185 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  185 (223)
                      +|.+.|+.+.|..-|.+..+.. +.++..++.+.-.+.-.|+++.|..++......+. -+...-..+..+....|++++
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHH
Confidence            9999999999999999999874 56778899999999999999999999999877654 477788889999999999999


Q ss_pred             HHHHHHHHHH
Q 027412          186 AMQLYDSMLR  195 (223)
Q Consensus       186 a~~~~~~~~~  195 (223)
                      |..+...-..
T Consensus       221 A~~i~~~e~~  230 (257)
T COG5010         221 AEDIAVQELL  230 (257)
T ss_pred             HHhhcccccc
Confidence            9988766543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.26  E-value=2e-09  Score=69.24  Aligned_cols=124  Identities=11%  Similarity=-0.039  Sum_probs=102.3

Q ss_pred             HHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 027412           12 LKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (223)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   91 (223)
                      ..+|++..+.  .|+  .+..+...+...|++++|...|+......+ .+..++..+..++...|++++|...|++....
T Consensus        13 ~~~~~~al~~--~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         13 EDILKQLLSV--DPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQP-WSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHHc--CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            3566666665  333  355678889999999999999999988763 37889999999999999999999999999998


Q ss_pred             CCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           92 GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        92 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      ++. +..++..+..++...|++++|...|+...+.. +.+...+.....+.
T Consensus        88 ~p~-~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~-p~~~~~~~~~~~~~  136 (144)
T PRK15359         88 DAS-HPEPVYQTGVCLKMMGEPGLAREAFQTAIKMS-YADASWSEIRQNAQ  136 (144)
T ss_pred             CCC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            876 88999999999999999999999999999864 44555555544443

>PLN02789 farnesyltranstransferase

Probab=99.25  E-value=2.2e-08  Score=72.71  Aligned_cols=207  Identities=14%  Similarity=0.037  Sum_probs=155.2

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC-chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCh--h
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM--D   79 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~   79 (223)
                      ...+..++|+.+.+++++..+. +..+|+.-..++...| ++++++..++++.+.+++ +..+|+.....+.+.|+.  +
T Consensus        48 ~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~  125 (320)
T PLN02789         48 ASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAAN  125 (320)
T ss_pred             HcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhH
Confidence            3456778888888888876422 4556776666777777 679999999999887654 666777666666666653  6


Q ss_pred             HHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc---CCH----HHHH
Q 027412           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR---GLM----EEAL  152 (223)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~----~~a~  152 (223)
                      ++..+++++.+.+++ +..+|+....++...|+++++++.++++++.+ +.+..+|+....++.+.   |..    ++..
T Consensus       126 ~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el  203 (320)
T PLN02789        126 KELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGLEAMRDSEL  203 (320)
T ss_pred             HHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccccccHHHHH
Confidence            788999999999887 89999999999999999999999999999887 66777888777666554   222    4677


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhc----CCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhc
Q 027412          153 YAFHCALDNHLLPDVVTYAILIRGYCKA----GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQS  215 (223)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  215 (223)
                      ....+++...+ -|...|+.+...+...    +...+|...+.+..+.+ ..+...+..|++.|+..
T Consensus       204 ~y~~~aI~~~P-~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~  268 (320)
T PLN02789        204 KYTIDAILANP-RNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEG  268 (320)
T ss_pred             HHHHHHHHhCC-CCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhh
Confidence            77777777766 4777888888887773    44567888888877632 33456677778887753

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

Probab=99.21  E-value=8.1e-09  Score=81.88  Aligned_cols=204  Identities=14%  Similarity=0.141  Sum_probs=125.8

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh---cCChhH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK---EGRMDD   80 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~   80 (223)
                      ..|++..|+.+|..+....+.-.+.....+..++.+.|+.+.|...|.+..+.++ .++.++..|.-.-..   ...+..
T Consensus       176 nkkdY~~al~yyk~al~inp~~~aD~rIgig~Cf~kl~~~~~a~~a~~ralqLdp-~~v~alv~L~~~~l~~~d~~s~~~  254 (1018)
T KOG2002|consen  176 NKKDYRGALKYYKKALRINPACKADVRIGIGHCFWKLGMSEKALLAFERALQLDP-TCVSALVALGEVDLNFNDSDSYKK  254 (1018)
T ss_pred             ccccHHHHHHHHHHHHhcCcccCCCccchhhhHHHhccchhhHHHHHHHHHhcCh-hhHHHHHHHHHHHHHccchHHHHH
Confidence            3466666777776654432211112223344556666666677666666665542 133333322222221   223455


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC--CCChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI--SPNIVSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      +..++...-..+.. ++...+.|...|.-.|+++.++.+...+.....  ..-...|..+.++|-..|++++|...|...
T Consensus       255 ~~~ll~~ay~~n~~-nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s  333 (1018)
T KOG2002|consen  255 GVQLLQRAYKENNE-NPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMES  333 (1018)
T ss_pred             HHHHHHHHHhhcCC-CcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHH
Confidence            55666555555544 777788888888888888888888887775431  122345788888888888888888888877


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhh
Q 027412          159 LDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADY  211 (223)
Q Consensus       159 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  211 (223)
                      ...........+..+.+.+...|+.+.+...|+...+.  .|+..-...++.+
T Consensus       334 ~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~--~p~~~etm~iLG~  384 (1018)
T KOG2002|consen  334 LKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQ--LPNNYETMKILGC  384 (1018)
T ss_pred             HccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHh--CcchHHHHHHHHh
Confidence            76554323455667788888888888888888888874  5665444444433

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=99.21  E-value=2.4e-09  Score=68.27  Aligned_cols=97  Identities=21%  Similarity=0.200  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      .....+...+...|++++|.+.++.....++. +...+..+..++...|++++|...++.....+ +.+...+..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            33444555555555555555555555554443 44555555555555555555555555555443 34445555555555


Q ss_pred             HhcCCHHHHHHHHHHHHhC
Q 027412          143 CKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~  161 (223)
                      ...|++++|...|+...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            5555555555555555543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

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

Probab=99.20  E-value=1.1e-08  Score=83.90  Aligned_cols=195  Identities=12%  Similarity=0.098  Sum_probs=156.7

Q ss_pred             ccccCHHHHHHHHHHHhhC-CCCc---CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCh
Q 027412            3 IKECHLDAALKLFGQLTDR-GLEP---DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   78 (223)
                      +..++++.|++++++++.. ++.-   -...|.++++.-...|.-+...++|+++.+..  .....|..|...|.+.+.+
T Consensus      1469 LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~~L~~iy~k~ek~ 1546 (1710)
T KOG1070|consen 1469 LELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHLKLLGIYEKSEKN 1546 (1710)
T ss_pred             hhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHHHHHHHHHHhhcc
Confidence            4567889999999988753 1111   24567777777777788888899999988652  2345678899999999999


Q ss_pred             hHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCC--ChhHHHHHHHHHHhcCCHHHHHHHHH
Q 027412           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP--NIVSYSILIDGLCKRGLMEEALYAFH  156 (223)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~  156 (223)
                      ++|.++++.|.++-- .....|...+..+.+.++-++|..++.++.+. +|-  ......-.+..-.+.|+.+.+..+|+
T Consensus      1547 ~~A~ell~~m~KKF~-q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~-lPk~eHv~~IskfAqLEFk~GDaeRGRtlfE 1624 (1710)
T KOG1070|consen 1547 DEADELLRLMLKKFG-QTRKVWIMYADFLLRQNEAEAARELLKRALKS-LPKQEHVEFISKFAQLEFKYGDAERGRTLFE 1624 (1710)
T ss_pred             hhHHHHHHHHHHHhc-chhhHHHHHHHHHhcccHHHHHHHHHHHHHhh-cchhhhHHHHHHHHHHHhhcCCchhhHHHHH
Confidence            999999999998743 37789999999999999999999999998874 222  34556667777789999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCch
Q 027412          157 CALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDG  202 (223)
Q Consensus       157 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  202 (223)
                      ..+...++ -...|+.+++.-.++|+.+.++.+|++....++.|..
T Consensus      1625 gll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kk 1669 (1710)
T KOG1070|consen 1625 GLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKK 1669 (1710)
T ss_pred             HHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhH
Confidence            98887653 5678999999999999999999999999998877764

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=99.19  E-value=1.4e-08  Score=80.63  Aligned_cols=145  Identities=10%  Similarity=0.089  Sum_probs=108.1

Q ss_pred             CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHH
Q 027412           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (223)
Q Consensus        24 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (223)
                      ..+...+..|..+..+.|.+++|..+++...+..+. +......+...+.+.+++++|...+++.....+. +......+
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~  160 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLE  160 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHH
Confidence            445777788888888888888888888888776433 4556667778888888888888888888887776 77777778


Q ss_pred             HHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 027412          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAI  172 (223)
Q Consensus       104 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  172 (223)
                      ..++...|++++|..+|+++...+ +.+..++..+...+...|+.++|...|++..+..- +....|+.
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~-~~~~~~~~  227 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIG-DGARKLTR  227 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhC-cchHHHHH
Confidence            888888888888888888887743 45577888888888888888888888888776432 34444443

>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=99.19  E-value=6e-08  Score=74.58  Aligned_cols=214  Identities=19%  Similarity=0.149  Sum_probs=133.1

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhc-----C
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE-----G   76 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~   76 (223)
                      +...|++++|++.++.-... +.............+.+.|+.++|..+|..+.+.++. +..-|..+..+..-.     .
T Consensus        14 l~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPd-n~~Yy~~L~~~~g~~~~~~~~   91 (517)
T PF12569_consen   14 LEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPD-NYDYYRGLEEALGLQLQLSDE   91 (517)
T ss_pred             HHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHhhhcccccc
Confidence            34678999999999775544 2323556677788899999999999999999888643 555555555554222     2


Q ss_pred             ChhHHHHHHHHHHhcCCCc-------------------------------cHHHHHHHHHHHHhhCChhHHHHHHHHHHH
Q 027412           77 RMDDATMMFSKMLEKGPKA-------------------------------NVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (223)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~-------------------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  125 (223)
                      +.+....+++++...-|..                               -+.+|+.+-..|......+-...++.....
T Consensus        92 ~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~  171 (517)
T PF12569_consen   92 DVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVN  171 (517)
T ss_pred             cHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHH
Confidence            3555566666654432210                               012334343444433333334444444332


Q ss_pred             C----C----------CCCCh--hHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHH
Q 027412          126 N----N----------ISPNI--VSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQL  189 (223)
Q Consensus       126 ~----~----------~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  189 (223)
                      .    +          -+|+.  .++..+.+.|-..|++++|++++++.++..+. .+..|..-.+.+.+.|++++|.+.
T Consensus       172 ~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~KarilKh~G~~~~Aa~~  250 (517)
T PF12569_consen  172 SLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARILKHAGDLKEAAEA  250 (517)
T ss_pred             hhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHCCCHHHHHHH
Confidence            1    1          12333  24466677788888888888888888887642 477888888888888888888888


Q ss_pred             HHHHHHCCCCC-chhhHHHHhhhHhhcCCCcc
Q 027412          190 YDSMLRNGIMP-DGLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       190 ~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~  220 (223)
                      ++...+.  .+ |...-+.....+.+.|..++
T Consensus       251 ~~~Ar~L--D~~DRyiNsK~aKy~LRa~~~e~  280 (517)
T PF12569_consen  251 MDEAREL--DLADRYINSKCAKYLLRAGRIEE  280 (517)
T ss_pred             HHHHHhC--ChhhHHHHHHHHHHHHHCCCHHH
Confidence            8888774  33 33444455566666665443

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 [], [].

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

Probab=99.18  E-value=3.1e-09  Score=84.16  Aligned_cols=188  Identities=15%  Similarity=0.118  Sum_probs=114.9

Q ss_pred             cCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCC-CCCcHHHHHHHHHHHHh----------
Q 027412            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-LKPNSITFTILIDAFCK----------   74 (223)
Q Consensus         6 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~----------   74 (223)
                      +++.+|...++...... ..++.++..+...+.+...|..|.+-|+.....- ..+|+.+.-.|.+.|.+          
T Consensus       544 ~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~e  622 (1018)
T KOG2002|consen  544 NNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPE  622 (1018)
T ss_pred             cCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChH
Confidence            45555666666655443 2245555555556666666666666555443321 12355555555554432          


Q ss_pred             --cCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHH
Q 027412           75 --EGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEAL  152 (223)
Q Consensus        75 --~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  152 (223)
                        .+..++|+++|.+.++.+|. |...-|-+.-+++..|++.+|..+|.+..+.. .....+|-.+..+|..+|++-.|+
T Consensus       623 k~kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~-~~~~dv~lNlah~~~e~~qy~~AI  700 (1018)
T KOG2002|consen  623 KEKKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREAT-SDFEDVWLNLAHCYVEQGQYRLAI  700 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHH-hhCCceeeeHHHHHHHHHHHHHHH
Confidence              23356677777777766665 66666777777777777777777777776653 334556777777777777777777


Q ss_pred             HHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          153 YAFHCALDN-HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       153 ~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      ++|+...+. ...-++.+...|.+++.+.|.+.+|.+.+......
T Consensus       701 qmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~  745 (1018)
T KOG2002|consen  701 QMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHL  745 (1018)
T ss_pred             HHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            777765543 33345666777777777777777777777666653

>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=99.18  E-value=3.5e-09  Score=75.78  Aligned_cols=151  Identities=19%  Similarity=0.190  Sum_probs=91.7

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh----
Q 027412           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----  109 (223)
Q Consensus        34 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----  109 (223)
                      ..++...|++++|++++...      .+.......+.+|.+.++++.|.+.++.|.+.+.  | .+...++.++..    
T Consensus       109 A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~e--D-~~l~qLa~awv~l~~g  179 (290)
T PF04733_consen  109 ATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQIDE--D-SILTQLAEAWVNLATG  179 (290)
T ss_dssp             HHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSC--C-HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC--c-HHHHHHHHHHHHHHhC
Confidence            34555567777777666532      2455556667777777777777777777766432  2 222223333322    


Q ss_pred             hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCc-chHHH
Q 027412          110 SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRP-TEAMQ  188 (223)
Q Consensus       110 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~  188 (223)
                      .+.+++|..+|+++.+. .++++.+.+.++.+....|++++|.+++.+..+.++ -++.+...++.+....|+. +.+.+
T Consensus       180 ~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~-~~~d~LaNliv~~~~~gk~~~~~~~  257 (290)
T PF04733_consen  180 GEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP-NDPDTLANLIVCSLHLGKPTEAAER  257 (290)
T ss_dssp             TTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C-CHHHHHHHHHHHHHHTT-TCHHHHH
T ss_pred             chhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHhCCChhHHHH
Confidence            23577777777776554 456777777777777777777777777777766554 3566666677776777766 45666


Q ss_pred             HHHHHHH
Q 027412          189 LYDSMLR  195 (223)
Q Consensus       189 ~~~~~~~  195 (223)
                      ++.++..
T Consensus       258 ~l~qL~~  264 (290)
T PF04733_consen  258 YLSQLKQ  264 (290)
T ss_dssp             HHHHCHH
T ss_pred             HHHHHHH
Confidence            6666665

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.

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

Probab=99.17  E-value=3.5e-08  Score=75.60  Aligned_cols=203  Identities=15%  Similarity=0.076  Sum_probs=155.8

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      ..|++..|+.++....+.... +...|..-+..-....+++.|..+|.+....  .|+..+|.--+..-.-.++.++|.+
T Consensus       596 ~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~r  672 (913)
T KOG0495|consen  596 KAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALR  672 (913)
T ss_pred             hcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHH
Confidence            458888888888888877533 6778888888888888888888888888764  5677777666666666788888888


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      ++++.++.-+. -...|-.+...+-+.++.+.|...|..-.+. +|.....|-.+...--+.|.+-+|..++++.+-.++
T Consensus       673 llEe~lk~fp~-f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNP  750 (913)
T KOG0495|consen  673 LLEEALKSFPD-FHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNP  750 (913)
T ss_pred             HHHHHHHhCCc-hHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCC
Confidence            88888776443 5567888888888888888888888776655 466667778888877888899999999998887776


Q ss_pred             CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHh
Q 027412          164 LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNL  213 (223)
Q Consensus       164 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  213 (223)
                       .+...|...++.=.+.|..++|..++.+.++. ++-+...|..-|...-
T Consensus       751 -k~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~  798 (913)
T KOG0495|consen  751 -KNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEP  798 (913)
T ss_pred             -CcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhcc
Confidence             47788888999999999999999888888765 3444445554444433

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

Probab=99.17  E-value=6.3e-08  Score=72.09  Aligned_cols=188  Identities=13%  Similarity=0.019  Sum_probs=125.2

Q ss_pred             ccCHHHHHHHHHHHhhCCC-CcCH-HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----cCCh
Q 027412            5 ECHLDAALKLFGQLTDRGL-EPDI-ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EGRM   78 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~   78 (223)
                      .|+.+.+...+....+... .++. .........+...|++++|.+.+++..+..+. +...+.. ...+..    .+..
T Consensus        19 ~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~-~~~~~~~~~~~~~~   96 (355)
T cd05804          19 GGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR-DLLALKL-HLGAFGLGDFSGMR   96 (355)
T ss_pred             cCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHH-hHHHHHhcccccCc
Confidence            3556666666666544321 2222 22333345567789999999999998876433 4444442 222222    3455


Q ss_pred             hHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      ..+.+.+...... ..........+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++.
T Consensus        97 ~~~~~~l~~~~~~-~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~  174 (355)
T cd05804          97 DHVARVLPLWAPE-NPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESW  174 (355)
T ss_pred             hhHHHHHhccCcC-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhh
Confidence            5555555542121 22234455567778889999999999999999875 666778888899999999999999999988


Q ss_pred             HhCCCC-CC--HHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          159 LDNHLL-PD--VVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       159 ~~~~~~-~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      ...... |+  ...|..+...+...|++++|..++++....
T Consensus       175 l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~  215 (355)
T cd05804         175 RDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAP  215 (355)
T ss_pred             hhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc
Confidence            765432 22  234567888899999999999999998643

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.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=99.17  E-value=3.8e-08  Score=78.32  Aligned_cols=135  Identities=13%  Similarity=0.103  Sum_probs=122.6

Q ss_pred             CCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHH
Q 027412           59 KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSIL  138 (223)
Q Consensus        59 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  138 (223)
                      ..++..+..|.....+.|.+++|+.+++...+..|. +......++.++.+.+++++|....++....+ +.+......+
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~  160 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLE  160 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHH
Confidence            446888899999999999999999999999998877 78888889999999999999999999999876 6777888999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          139 IDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       139 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      ..++...|++++|..+|+++...++ -+..++..+..++...|+.++|...|++..+.
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999999999998554 35789999999999999999999999999876

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

Probab=99.16  E-value=2e-08  Score=79.04  Aligned_cols=185  Identities=16%  Similarity=0.103  Sum_probs=147.5

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHH
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF  108 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  108 (223)
                      ..-.........|+.++|.+++.++++..+. ....|..|...|-+.|+.+++...+-.....++. |...|..+.....
T Consensus       141 ~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~-d~e~W~~ladls~  218 (895)
T KOG2076|consen  141 QLLGEANNLFARGDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK-DYELWKRLADLSE  218 (895)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHH
Confidence            3334444455569999999999999987643 7788999999999999999999988777666666 7799999999999


Q ss_pred             hhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHHhcCCcc
Q 027412          109 KSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVV----TYAILIRGYCKAGRPT  184 (223)
Q Consensus       109 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~  184 (223)
                      +.|++++|.-+|.++++.. |++...+-.-...|.+.|+...|...|.++....+..+..    ....+++.+...++-+
T Consensus       219 ~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e  297 (895)
T KOG2076|consen  219 QLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERE  297 (895)
T ss_pred             hcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHH
Confidence            9999999999999999986 7777788888899999999999999999999876533333    3344567788888889


Q ss_pred             hHHHHHHHHHHC-CCCCchhhHHHHhhhHhhcC
Q 027412          185 EAMQLYDSMLRN-GIMPDGLLLSTLADYNLQSS  216 (223)
Q Consensus       185 ~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~  216 (223)
                      .|.+.++..... +-..+..+++.++..+.+..
T Consensus       298 ~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~  330 (895)
T KOG2076|consen  298 RAAKALEGALSKEKDEASLEDLNILAELFLKNK  330 (895)
T ss_pred             HHHHHHHHHHhhccccccccHHHHHHHHHHHhH
Confidence            999999888763 22445556666666665543

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

Probab=99.15  E-value=1.1e-08  Score=69.84  Aligned_cols=132  Identities=16%  Similarity=0.065  Sum_probs=117.2

Q ss_pred             cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHH
Q 027412           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (223)
Q Consensus        25 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (223)
                      .+.......+....+.|++..|...+.+..... ++|..+|+.+.-+|.+.|+.+.|..-|.+..+..+. ++...+.+.
T Consensus        98 ~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlg  175 (257)
T COG5010          98 KDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPN-EPSIANNLG  175 (257)
T ss_pred             ccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccC-CchhhhhHH
Confidence            355666778899999999999999999998765 569999999999999999999999999999998666 788899999


Q ss_pred             HHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412          105 DGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       105 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      ..+.-.|+++.|..++......+ +-|..+-..+..+....|+++.|..+...-.
T Consensus       176 ms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~~~e~  229 (257)
T COG5010         176 MSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIAVQEL  229 (257)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhccccc
Confidence            99999999999999999998875 5588889999999999999999998876443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=99.14  E-value=1.3e-08  Score=64.96  Aligned_cols=96  Identities=16%  Similarity=0.118  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 027412           98 VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGY  177 (223)
Q Consensus        98 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  177 (223)
                      .....+...+...|++++|...++.+...+ +.+...+..+...+...|++++|...++...+.++ .+...+..+..++
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDP-DDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CChHHHHHHHHHH
Confidence            334444455555555555555555554443 33445555555555555555555555555544432 2444445555555


Q ss_pred             HhcCCcchHHHHHHHHHH
Q 027412          178 CKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       178 ~~~g~~~~a~~~~~~~~~  195 (223)
                      ...|++++|...+++..+
T Consensus        96 ~~~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        96 LALGEPESALKALDLAIE  113 (135)
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            555555555555555554

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

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

Probab=99.13  E-value=1.6e-08  Score=75.95  Aligned_cols=212  Identities=16%  Similarity=0.106  Sum_probs=143.3

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      ..+++.+..++++.+.+.. ++....+..-|.++...|+..+-.-+-.++.+.-+ ..+.+|-++.--|.-.|+..+|.+
T Consensus       256 ~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP-~~a~sW~aVg~YYl~i~k~seARr  333 (611)
T KOG1173|consen  256 YGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYP-SKALSWFAVGCYYLMIGKYSEARR  333 (611)
T ss_pred             HcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCC-CCCcchhhHHHHHHHhcCcHHHHH
Confidence            4567778888888777664 44555666666677777777777777777765542 256677777777777777888888


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHH----------------------------------hhCChhHHHHHHHHHHHCCCC
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYF----------------------------------KSQNMKSAFDVYEEMCENNIS  129 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~----------------------------------~~~~~~~a~~~~~~~~~~~~~  129 (223)
                      .|.+....++. -...|-.+..+|+                                  +.++.+.|.++|.++.... |
T Consensus       334 y~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~-P  411 (611)
T KOG1173|consen  334 YFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIA-P  411 (611)
T ss_pred             HHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcC-C
Confidence            87776655443 2334444444444                                  4555555555555555543 5


Q ss_pred             CChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC--CCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          130 PNIVSYSILIDGLCKRGLMEEALYAFHCALDN----HLL--PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       130 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                      .|+..++-+.-.....+.+.+|..+|+..+..    +..  .-..+++.+..+|.+.+.+++|+..+++.+.. .+-+..
T Consensus       412 ~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l-~~k~~~  490 (611)
T KOG1173|consen  412 SDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL-SPKDAS  490 (611)
T ss_pred             CcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc-CCCchh
Confidence            67777788877778888999999999887721    110  12346899999999999999999999999884 234455


Q ss_pred             hHHHHhhhHhhcCCCcc
Q 027412          204 LLSTLADYNLQSSGSQE  220 (223)
Q Consensus       204 ~~~~l~~~~~~~~~~~~  220 (223)
                      ++.++--.+...|+.+.
T Consensus       491 ~~asig~iy~llgnld~  507 (611)
T KOG1173|consen  491 THASIGYIYHLLGNLDK  507 (611)
T ss_pred             HHHHHHHHHHHhcChHH
Confidence            66666556666665543

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

Probab=99.12  E-value=3.3e-09  Score=81.66  Aligned_cols=196  Identities=15%  Similarity=0.171  Sum_probs=143.6

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHH---------
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFC---------   73 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------   73 (223)
                      ...|-...|+.+|+++.         .|...+.+|...|+..+|..+..+..+.  +|++..|..+++...         
T Consensus       409 ~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yEkaw  477 (777)
T KOG1128|consen  409 LSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYEKAW  477 (777)
T ss_pred             HHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHHHHH
Confidence            34566667777776543         4566677777777777777777766653  556666655555432         


Q ss_pred             -------------------hcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhH
Q 027412           74 -------------------KEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVS  134 (223)
Q Consensus        74 -------------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  134 (223)
                                         +.++++++.+.|+.-.+.++- ...+|..+.-++.+.++++.+.+.|....... |.+...
T Consensus       478 Elsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~npl-q~~~wf~~G~~ALqlek~q~av~aF~rcvtL~-Pd~~ea  555 (777)
T KOG1128|consen  478 ELSNYISARAQRSLALLILSNKDFSEADKHLERSLEINPL-QLGTWFGLGCAALQLEKEQAAVKAFHRCVTLE-PDNAEA  555 (777)
T ss_pred             HHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcCcc-chhHHHhccHHHHHHhhhHHHHHHHHHHhhcC-CCchhh
Confidence                               245666666666666665443 66788888889999999999999999888764 556789


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCC-CCchhhHHHHhhhH
Q 027412          135 YSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGI-MPDGLLLSTLADYN  212 (223)
Q Consensus       135 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~p~~~~~~~l~~~~  212 (223)
                      ||++-.+|.+.++..+|...+.+..+.+ ..+...|.+.+......|.+++|++.+.++.+... .-|......++...
T Consensus       556 WnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~iv~~~  633 (777)
T KOG1128|consen  556 WNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLIIVRTV  633 (777)
T ss_pred             hhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHHHHHHH
Confidence            9999999999999999999999999887 45777888888888999999999999998876521 22444444444433

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

Probab=99.11  E-value=1e-07  Score=73.18  Aligned_cols=208  Identities=14%  Similarity=0.092  Sum_probs=147.8

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      +.+.++++|..+|.+....  .|+..+|.--+..-.-.++.++|.+++++..+.- +.-...|-.+.+.+-+.++.+.|.
T Consensus       629 ~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~f-p~f~Kl~lmlGQi~e~~~~ie~aR  705 (913)
T KOG0495|consen  629 FENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKSF-PDFHKLWLMLGQIEEQMENIEMAR  705 (913)
T ss_pred             hccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhC-CchHHHHHHHhHHHHHHHHHHHHH
Confidence            3566788888888877664  5677777777777777788888888888777552 223456777777777778888887


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ..|..-.+.-|. .+..|..|...=-+.|+.-.|..+++.....+ |-+...|...|+.-.+.|..+.|..++.+.++.-
T Consensus       706 ~aY~~G~k~cP~-~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQec  783 (913)
T KOG0495|consen  706 EAYLQGTKKCPN-SIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQEC  783 (913)
T ss_pred             HHHHhccccCCC-CchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            777766555433 56677777777777777888888888777665 6677777778888888888887777776665421


Q ss_pred             C-----------------------------CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhH
Q 027412          163 L-----------------------------LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYN  212 (223)
Q Consensus       163 ~-----------------------------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~  212 (223)
                      +                             ..|+.....+...+....++++|.+.|.+.++.  .|| ..+|.-+...+
T Consensus       784 p~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~--d~d~GD~wa~fykfe  861 (913)
T KOG0495|consen  784 PSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKK--DPDNGDAWAWFYKFE  861 (913)
T ss_pred             CccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHcc--CCccchHHHHHHHHH
Confidence            1                             125566677777778888888888888888874  555 45666666666


Q ss_pred             hhcCC
Q 027412          213 LQSSG  217 (223)
Q Consensus       213 ~~~~~  217 (223)
                      .+.|.
T Consensus       862 l~hG~  866 (913)
T KOG0495|consen  862 LRHGT  866 (913)
T ss_pred             HHhCC
Confidence            66663

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

Probab=99.11  E-value=8e-08  Score=71.56  Aligned_cols=155  Identities=17%  Similarity=0.113  Sum_probs=112.2

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCh
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   78 (223)
                      ...|++++|.+.+++..+.. +.+...+.. ...+..    .+..+.+.+.+.... ...+........+...+...|++
T Consensus        54 ~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~a~~~~~~G~~  130 (355)
T cd05804          54 WIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPLWA-PENPDYWYLLGMLAFGLEEAGQY  130 (355)
T ss_pred             HHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccccCchhHHHHHhccC-cCCCCcHHHHHHHHHHHHHcCCH
Confidence            45789999999999988764 334444442 222222    345555555555421 11222344555677788999999


Q ss_pred             hHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC-CCCh--hHHHHHHHHHHhcCCHHHHHHHH
Q 027412           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI-SPNI--VSYSILIDGLCKRGLMEEALYAF  155 (223)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~  155 (223)
                      ++|...+++..+..+. +...+..+..++...|++++|..++++...... .++.  ..+..+...+...|++++|..++
T Consensus       131 ~~A~~~~~~al~~~p~-~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~  209 (355)
T cd05804         131 DRAEEAARRALELNPD-DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIY  209 (355)
T ss_pred             HHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999998766 678888899999999999999999999887531 1222  34557888999999999999999


Q ss_pred             HHHHhC
Q 027412          156 HCALDN  161 (223)
Q Consensus       156 ~~~~~~  161 (223)
                      ++....
T Consensus       210 ~~~~~~  215 (355)
T cd05804         210 DTHIAP  215 (355)
T ss_pred             HHHhcc
Confidence            998644

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.

>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=99.10  E-value=1e-07  Score=73.28  Aligned_cols=181  Identities=16%  Similarity=0.125  Sum_probs=136.1

Q ss_pred             HHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhC----C----------CCCcH--HHHHHHHHHHHh
Q 027412           11 ALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV----Q----------LKPNS--ITFTILIDAFCK   74 (223)
Q Consensus        11 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~----------~~~~~--~~~~~l~~~~~~   74 (223)
                      +...+..+..+|+|   .+|+.+-..|....+.+-...++......    +          -+|+.  .++..+...|..
T Consensus       130 ~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~  206 (517)
T PF12569_consen  130 LDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDY  206 (517)
T ss_pred             HHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHH
Confidence            44555666777765   36777777777666666666666665432    1          12333  355777888889


Q ss_pred             cCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHH
Q 027412           75 EGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYA  154 (223)
Q Consensus        75 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  154 (223)
                      .|++++|++++++.+...|. .+..|..-.+.+-+.|++++|...++.+...+ .-|...-+-.+..+.+.|+.++|.++
T Consensus       207 ~g~~~~Al~~Id~aI~htPt-~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~  284 (517)
T PF12569_consen  207 LGDYEKALEYIDKAIEHTPT-LVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKT  284 (517)
T ss_pred             hCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHH
Confidence            99999999999999998765 58889999999999999999999999999876 56777777788889999999999999


Q ss_pred             HHHHHhCCCCCCH--------HHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          155 FHCALDNHLLPDV--------VTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       155 ~~~~~~~~~~~~~--------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      +....+.+..|..        .-......+|.+.|++..|++-|....+.
T Consensus       285 ~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~  334 (517)
T PF12569_consen  285 ASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKH  334 (517)
T ss_pred             HHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            9888766543322        12245677799999999988877666543

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 [], [].

>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=3.7e-09  Score=75.68  Aligned_cols=184  Identities=16%  Similarity=0.126  Sum_probs=120.9

Q ss_pred             CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC-CcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHH
Q 027412           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK-PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSC  102 (223)
Q Consensus        24 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  102 (223)
                      .|.......+...+...++-+.++.-+++....... .+..........+...|++++|++++...      .+......
T Consensus        63 ~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al  136 (290)
T PF04733_consen   63 SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLAL  136 (290)
T ss_dssp             SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHH
T ss_pred             ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHH
Confidence            445445544544444334444555544444333322 23333334445566778999998887642      25677777


Q ss_pred             HHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 027412          103 LIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK----RGLMEEALYAFHCALDNHLLPDVVTYAILIRGYC  178 (223)
Q Consensus       103 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  178 (223)
                      .+.++.+.++++.|.+.++.|.+.+   +..+...++.++..    .+.+.+|..+|+++.+. ..+++.+.+.++.+..
T Consensus       137 ~Vqi~L~~~R~dlA~k~l~~~~~~~---eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l  212 (290)
T PF04733_consen  137 AVQILLKMNRPDLAEKELKNMQQID---EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHL  212 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHCCS---CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC---CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHH
Confidence            8899999999999999999998753   33455556555543    34699999999998765 4578899999999999


Q ss_pred             hcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCC
Q 027412          179 KAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGS  218 (223)
Q Consensus       179 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  218 (223)
                      ..|++++|.+++.+..+.. .-++.+...++-+....|+.
T Consensus       213 ~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~  251 (290)
T PF04733_consen  213 QLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKP  251 (290)
T ss_dssp             HCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-T
T ss_pred             HhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCC
Confidence            9999999999999987643 23455666666666666655

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.

>PLN02789 farnesyltranstransferase

Probab=99.06  E-value=3.9e-07  Score=66.28  Aligned_cols=180  Identities=12%  Similarity=0.030  Sum_probs=137.0

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcC-ChhHHHHHHHHHHhcCCCccHHHHHHHHHHH
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG-RMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (223)
                      ++..+-.++...+..++|+.++.++++.++. +..+|+.-..++...| ++++++..++++.+.+++ +..+|+....++
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l  116 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHH
Confidence            4445555666678899999999999987533 5567777777777777 689999999999998887 777888777777


Q ss_pred             HhhCCh--hHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CC
Q 027412          108 FKSQNM--KSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA---GR  182 (223)
Q Consensus       108 ~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~  182 (223)
                      .+.|+.  +++..+++++.+.+ +-+..+|+....++...|+++++++.++++++.++ .|...|+....++.+.   |.
T Consensus       117 ~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHHHhcccccc
Confidence            777763  67899999999876 77889999999999999999999999999999887 4777887777666554   33


Q ss_pred             c----chHHHHHHHHHHCCCCCch-hhHHHHhhhHhh
Q 027412          183 P----TEAMQLYDSMLRNGIMPDG-LLLSTLADYNLQ  214 (223)
Q Consensus       183 ~----~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~  214 (223)
                      .    ++...+..+++..  .|+. ..|+.+...+..
T Consensus       195 ~~~~~e~el~y~~~aI~~--~P~N~SaW~Yl~~ll~~  229 (320)
T PLN02789        195 LEAMRDSELKYTIDAILA--NPRNESPWRYLRGLFKD  229 (320)
T ss_pred             ccccHHHHHHHHHHHHHh--CCCCcCHHHHHHHHHhc
Confidence            3    3567777677763  5554 455555554443

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

Probab=99.03  E-value=1.3e-08  Score=78.46  Aligned_cols=163  Identities=18%  Similarity=0.149  Sum_probs=124.2

Q ss_pred             CCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHH
Q 027412           22 GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYS  101 (223)
Q Consensus        22 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  101 (223)
                      +.+|--..-..+...+.+.|-...|..+++++.         .|...+.+|...|+..+|..+..+..++  +|++..|.
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc  461 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYC  461 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHH
Confidence            445555556678888999999999999999874         4667888999999999999998888773  34666666


Q ss_pred             HHHHHHHh----------------------------hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHH
Q 027412          102 CLIDGYFK----------------------------SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALY  153 (223)
Q Consensus       102 ~l~~~~~~----------------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  153 (223)
                      .++.....                            .++++++.+.|+.-.+.+ +....+|..+..+..+.++++.|.+
T Consensus       462 ~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~  540 (777)
T KOG1128|consen  462 LLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVK  540 (777)
T ss_pred             HhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHH
Confidence            55554433                            345555666665555443 4556678888888888899999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCC
Q 027412          154 AFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNG  197 (223)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  197 (223)
                      .|.......+ -+...||++..+|.+.++-.+|...+.+..+.+
T Consensus       541 aF~rcvtL~P-d~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  541 AFHRCVTLEP-DNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHHHhhcCC-CchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            9988887665 467889999999999999999999999988775

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

Probab=99.00  E-value=4e-07  Score=66.41  Aligned_cols=49  Identities=18%  Similarity=0.251  Sum_probs=23.8

Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHH
Q 027412           71 AFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY  120 (223)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  120 (223)
                      .+...|++++|.-.|+......|. +...|.-|+.+|...|.+.+|.-.-
T Consensus       343 lL~~~~R~~~A~IaFR~Aq~Lap~-rL~~Y~GL~hsYLA~~~~kEA~~~A  391 (564)
T KOG1174|consen  343 LLIALERHTQAVIAFRTAQMLAPY-RLEIYRGLFHSYLAQKRFKEANALA  391 (564)
T ss_pred             HHHhccchHHHHHHHHHHHhcchh-hHHHHHHHHHHHHhhchHHHHHHHH
Confidence            344444555555555544443332 4455555555555555555544333

>PF12854 PPR_1: PPR repeat

Probab=98.99  E-value=1e-09  Score=51.59  Aligned_cols=32  Identities=41%  Similarity=0.784  Sum_probs=16.7

Q ss_pred             CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412          127 NISPNIVSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus       127 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      |++||..+|+.+|.+|++.|++++|.++|++|
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            34555555555555555555555555555544

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.99  E-value=1.9e-06  Score=58.99  Aligned_cols=187  Identities=14%  Similarity=0.126  Sum_probs=141.3

Q ss_pred             cCHHHHHHHHHHHhhC---C-CCcCHH-HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH
Q 027412            6 CHLDAALKLFGQLTDR---G-LEPDII-TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         6 g~~~~A~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      .+.++.++++.++...   | ..++.. .|..++-+....|+.+.|...++++...- +-+..+-..-...+--.|++++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchhh
Confidence            4677788888877542   3 344433 35566667777899999999999987553 3344443333344556799999


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      |+++++.+.+.+|. |..++---+.+.-..|+.-+|++-+....+. +..|...|.-+...|...|++++|.-.++++.-
T Consensus       105 A~e~y~~lL~ddpt-~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  105 AIEYYESLLEDDPT-DTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHHhccCcc-hhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            99999999998876 7778877777777888888888888888776 578999999999999999999999999999987


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCC---cchHHHHHHHHHHC
Q 027412          161 NHLLPDVVTYAILIRGYCKAGR---PTEAMQLYDSMLRN  196 (223)
Q Consensus       161 ~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~  196 (223)
                      ..| .++..+..+...+.-.|.   .+.+.++|.+.++.
T Consensus       183 ~~P-~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  183 IQP-FNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             cCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            765 466667777777655554   56788888888874

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.99  E-value=2.7e-07  Score=68.46  Aligned_cols=114  Identities=19%  Similarity=0.204  Sum_probs=60.3

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHH
Q 027412           70 DAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLME  149 (223)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  149 (223)
                      ..+...|++++|+..++.++...|. |+..+......+...++.++|.+.++++.... |........+..++.+.|++.
T Consensus       314 ~~~~~~~~~d~A~~~l~~L~~~~P~-N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~-P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         314 LQTYLAGQYDEALKLLQPLIAAQPD-NPYYLELAGDILLEANKAKEAIERLKKALALD-PNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHHhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCccHHHHHHHHHHHhcCChH
Confidence            3334455556666666555555443 55555555555556666666666666555542 222444455555555666666


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchH
Q 027412          150 EALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEA  186 (223)
Q Consensus       150 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  186 (223)
                      +|...++......+ -|+..|..|.++|...|+..++
T Consensus       392 eai~~L~~~~~~~p-~dp~~w~~LAqay~~~g~~~~a  427 (484)
T COG4783         392 EAIRILNRYLFNDP-EDPNGWDLLAQAYAELGNRAEA  427 (484)
T ss_pred             HHHHHHHHHhhcCC-CCchHHHHHHHHHHHhCchHHH
Confidence            66655555554443 3555555555555554444333

>PF12854 PPR_1: PPR repeat

Probab=98.97  E-value=1.3e-09  Score=51.23  Aligned_cols=32  Identities=41%  Similarity=0.889  Sum_probs=15.8

Q ss_pred             CCCCcHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 027412           57 QLKPNSITFTILIDAFCKEGRMDDATMMFSKM   88 (223)
Q Consensus        57 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   88 (223)
                      |+.||..+|+.|+.+|++.|++++|.++|++|
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            34445555555555555555555555555444

>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=98.97  E-value=9e-08  Score=71.03  Aligned_cols=126  Identities=17%  Similarity=0.249  Sum_probs=101.7

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHH
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (223)
                      .....|+..+...++++.|..+++++.+..  |+  ....+++.+...++-.+|.+++.+..+..+. +...+......+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~-d~~LL~~Qa~fL  244 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQ-DSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            344566677777889999999999998763  44  3445788888888888999999998887665 777777788888


Q ss_pred             HhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412          108 FKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       108 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      .+.++++.|..+.+++.+.. |.+..+|..|+.+|...|+++.|+..+..+.
T Consensus       245 l~k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999999998864 5556699999999999999999998887665

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

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

Probab=98.96  E-value=6.5e-07  Score=65.36  Aligned_cols=193  Identities=15%  Similarity=0.076  Sum_probs=146.5

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      ...++..|+.+-++.++... .+...+..-...+...+++++|.-.|.......+ -+...|..|+.+|...|.+.+|.-
T Consensus       312 ~~K~~~rAL~~~eK~I~~~~-r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap-~rL~~Y~GL~hsYLA~~~~kEA~~  389 (564)
T KOG1174|consen  312 DEKKFERALNFVEKCIDSEP-RNHEALILKGRLLIALERHTQAVIAFRTAQMLAP-YRLEIYRGLFHSYLAQKRFKEANA  389 (564)
T ss_pred             hhhhHHHHHHHHHHHhccCc-ccchHHHhccHHHHhccchHHHHHHHHHHHhcch-hhHHHHHHHHHHHHhhchHHHHHH
Confidence            45678888888888877642 3566676667888899999999999998876642 377899999999999999999988


Q ss_pred             HHHHHHhcCCCccHHHHHHHH-HHHH-hhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           84 MFSKMLEKGPKANVVTYSCLI-DGYF-KSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      +-++..+.-+ .+..+...+. ..+. ...--++|..++++..+.. |.-....+.+...+...|..+.++.++++.+..
T Consensus       390 ~An~~~~~~~-~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~-P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~  467 (564)
T KOG1174|consen  390 LANWTIRLFQ-NSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKIN-PIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII  467 (564)
T ss_pred             HHHHHHHHhh-cchhhhhhhcceeeccCchhHHHHHHHHHhhhccC-CccHHHHHHHHHHHHhhCccchHHHHHHHHHhh
Confidence            7776655423 2556665542 2232 2233478899998888753 344567788888899999999999999988764


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhh
Q 027412          162 HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLL  204 (223)
Q Consensus       162 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  204 (223)
                      .  ||....+.+.+.+...+.+++|...|...++  +.|+..-
T Consensus       468 ~--~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr--~dP~~~~  506 (564)
T KOG1174|consen  468 F--PDVNLHNHLGDIMRAQNEPQKAMEYYYKALR--QDPKSKR  506 (564)
T ss_pred             c--cccHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCccchH
Confidence            3  7888889999999999999999999988887  4666543

>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=98.95  E-value=2.3e-07  Score=68.86  Aligned_cols=125  Identities=18%  Similarity=0.181  Sum_probs=106.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLC  143 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  143 (223)
                      ....|+..+...++++.|..+|+++.+..+  +  ....+++.+...++..+|.+++.+..... +.+...+..-...+.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~p--e--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERDP--E--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcCC--c--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            445667777778999999999999998763  3  44558888888899999999999999764 667788888888999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 027412          144 KRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSML  194 (223)
Q Consensus       144 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  194 (223)
                      +.++++.|+++.+++.+..+ -+..+|..|+.+|...|+++.|+..++.+-
T Consensus       246 ~k~~~~lAL~iAk~av~lsP-~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSP-SEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999999998765 467799999999999999999999888765

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

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

Probab=98.93  E-value=5.6e-07  Score=61.88  Aligned_cols=152  Identities=22%  Similarity=0.192  Sum_probs=86.4

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh---
Q 027412           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK---  109 (223)
Q Consensus        33 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---  109 (223)
                      -...|...+++++|++......      +......=...+.+..+.+.|.+.+++|.+.+   +..+.+-|..++.+   
T Consensus       114 aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~  184 (299)
T KOG3081|consen  114 AAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLAT  184 (299)
T ss_pred             hhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhc
Confidence            3445666667777766665521      22222222334445556677777777776532   34455544444432   


Q ss_pred             -hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcch-HH
Q 027412          110 -SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTE-AM  187 (223)
Q Consensus       110 -~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~  187 (223)
                       .+.+..|.-+|++|.++ .+|++.+.+..+.++...|++++|..+++..+.... .++.+...++.+-...|...+ ..
T Consensus       185 ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~-~dpetL~Nliv~a~~~Gkd~~~~~  262 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDA-KDPETLANLIVLALHLGKDAEVTE  262 (299)
T ss_pred             cchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccC-CCHHHHHHHHHHHHHhCCChHHHH
Confidence             34566677777777654 366777777777777777777777777777766554 355555555555555555433 33


Q ss_pred             HHHHHHHH
Q 027412          188 QLYDSMLR  195 (223)
Q Consensus       188 ~~~~~~~~  195 (223)
                      +.+.++..
T Consensus       263 r~l~QLk~  270 (299)
T KOG3081|consen  263 RNLSQLKL  270 (299)
T ss_pred             HHHHHHHh
Confidence            44444444

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.92  E-value=2.5e-06  Score=63.54  Aligned_cols=142  Identities=20%  Similarity=0.242  Sum_probs=118.8

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCCh
Q 027412           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM  113 (223)
Q Consensus        34 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  113 (223)
                      .-.+...|+.+.|+..+..+.... +-|+..+......+.+.++.++|.+.++++....|. .....-.+..++.+.|++
T Consensus       313 A~~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~-~~~l~~~~a~all~~g~~  390 (484)
T COG4783         313 ALQTYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALDPN-SPLLQLNLAQALLKGGKP  390 (484)
T ss_pred             HHHHHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-ccHHHHHHHHHHHhcCCh
Confidence            344566789999999999988664 337777788889999999999999999999998766 467777899999999999


Q ss_pred             hHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          114 KSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       114 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                      ++|..+++...... +.|+..|..|.++|...|+..++....                  ...+...|++++|...+...
T Consensus       391 ~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~------------------AE~~~~~G~~~~A~~~l~~A  451 (484)
T COG4783         391 QEAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLAR------------------AEGYALAGRLEQAIIFLMRA  451 (484)
T ss_pred             HHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHH------------------HHHHHhCCCHHHHHHHHHHH
Confidence            99999999988775 889999999999999999988776544                  34556778899999888888


Q ss_pred             HHC
Q 027412          194 LRN  196 (223)
Q Consensus       194 ~~~  196 (223)
                      .+.
T Consensus       452 ~~~  454 (484)
T COG4783         452 SQQ  454 (484)
T ss_pred             HHh
Confidence            776

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.90  E-value=4.3e-07  Score=58.61  Aligned_cols=116  Identities=16%  Similarity=0.167  Sum_probs=51.4

Q ss_pred             cCchhHHHHHHHHHHhCCCCC--cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccH--HHHHHHHHHHHhhCChhH
Q 027412           40 LNRLDEAVQLFEKLTCVQLKP--NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANV--VTYSCLIDGYFKSQNMKS  115 (223)
Q Consensus        40 ~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~  115 (223)
                      .++...+...++.+.......  .....-.+...+...|++++|...|+......+.|..  .....+..++...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            445555555555554432111  0112222334445555555555555555554332221  122334445555555555


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHH
Q 027412          116 AFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHC  157 (223)
Q Consensus       116 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  157 (223)
                      |+..++.....  ......+.....++.+.|++++|...|+.
T Consensus       104 Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55555442221  22333444455555555555555555543

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.90  E-value=4.1e-07  Score=58.72  Aligned_cols=128  Identities=17%  Similarity=0.182  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCcc--HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC--hhHHHHH
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN--VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN--IVSYSIL  138 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l  138 (223)
                      ..|..++..+ ..++...+...++.+....+...  ....-.+...+...|++++|...|+.+......++  ......+
T Consensus        13 ~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   13 ALYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            3455555555 47899999999999998766521  33444567888999999999999999998752222  2345567


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          139 IDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       139 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                      ...+...|++++|+..++......  .....+.....++...|++++|...|++.
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            888999999999999997754333  35567788899999999999999999864

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.89  E-value=1.8e-07  Score=65.53  Aligned_cols=187  Identities=16%  Similarity=0.214  Sum_probs=136.5

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHH-HHHHHHhcCChhHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI-LIDAFCKEGRMDDA   81 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a   81 (223)
                      ++..++..|++++..-.++. +.+....+.|..+|....++..|-..++++...  .|...-|.. -...+.+.+.+.+|
T Consensus        21 I~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~A~i~ADA   97 (459)
T KOG4340|consen   21 IRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYKACIYADA   97 (459)
T ss_pred             HHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHHhcccHHH
Confidence            56678888888888777764 237778899999999999999999999999765  444444432 34566678899999


Q ss_pred             HHHHHHHHhcCCCccHH--HHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           82 TMMFSKMLEKGPKANVV--TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      +++...|...   ++..  ....-.....+.+++..+..++++.-..|   +..+.+.......+.|+++.|.+-|+...
T Consensus        98 LrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqkFqaAl  171 (459)
T KOG4340|consen   98 LRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQKFQAAL  171 (459)
T ss_pred             HHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHHHHHHHH
Confidence            9999887543   2222  22222233456788888888888775433   55666777777789999999999999988


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCC
Q 027412          160 DNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIM  199 (223)
Q Consensus       160 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  199 (223)
                      +-+--.....|+..+ +..+.|+++.|+++..+++++|++
T Consensus       172 qvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r  210 (459)
T KOG4340|consen  172 QVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIR  210 (459)
T ss_pred             hhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhh
Confidence            764434456676555 445669999999999999988765

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

Probab=98.88  E-value=2.1e-07  Score=70.20  Aligned_cols=163  Identities=19%  Similarity=0.186  Sum_probs=133.5

Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChh
Q 027412           35 CGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK  114 (223)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  114 (223)
                      .-+.+.|++.+|.-.|+..+..++. +...|..|.......++-..|+..+++-.+.++. |..+.-.|...|...|.-.
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHH
Confidence            3466789999999999999887644 7889999999999999999999999999998887 7888888888888777666


Q ss_pred             HHHHHHHHHHHC------------------------------------------CCCCChhHHHHHHHHHHhcCCHHHHH
Q 027412          115 SAFDVYEEMCEN------------------------------------------NISPNIVSYSILIDGLCKRGLMEEAL  152 (223)
Q Consensus       115 ~a~~~~~~~~~~------------------------------------------~~~~~~~~~~~l~~~~~~~~~~~~a~  152 (223)
                      .|...++.-+..                                          +..+|+.+...|.-.|.-.|++++|.
T Consensus       371 ~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            666666554322                                          21256667778888888899999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCch
Q 027412          153 YAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDG  202 (223)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  202 (223)
                      ..|+.++...+ -|..+||-|...+....+.++|+..|.++++  +.|.-
T Consensus       451 Dcf~~AL~v~P-nd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~y  497 (579)
T KOG1125|consen  451 DCFEAALQVKP-NDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGY  497 (579)
T ss_pred             HHHHHHHhcCC-chHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCe
Confidence            99999988766 4788999999999999999999999999998  56764

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.85  E-value=1.6e-06  Score=65.16  Aligned_cols=204  Identities=17%  Similarity=0.167  Sum_probs=155.6

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHH-------HHHHHHhcC
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI-------LIDAFCKEG   76 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------l~~~~~~~~   76 (223)
                      +..+++.|++-+.......  .+..-++....+|...|.+.++...-....+.|.. ...-|+.       +..+|.+.+
T Consensus       236 kkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~  312 (539)
T KOG0548|consen  236 KKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKRE  312 (539)
T ss_pred             HhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHH
Confidence            4567888888888888764  36666788888999999999888888887776633 2333333       344566678


Q ss_pred             ChhHHHHHHHHHHhcCCCccHHH-------------------------HHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC
Q 027412           77 RMDDATMMFSKMLEKGPKANVVT-------------------------YSCLIDGYFKSQNMKSAFDVYEEMCENNISPN  131 (223)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~-------------------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  131 (223)
                      +++.++..|.+.......|+...                         ...-...+.+.|++..|+..|.+++..+ |.|
T Consensus       313 ~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~D  391 (539)
T KOG0548|consen  313 DYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PED  391 (539)
T ss_pred             hHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-Cch
Confidence            88889888888766544443221                         1223556778999999999999999887 888


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhh
Q 027412          132 IVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADY  211 (223)
Q Consensus       132 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  211 (223)
                      ...|.....+|.+.|.+..|++-.+...+.++ +....|.--..++....+|++|.+.|.+.++.  .|+..-+..-+.-
T Consensus       392 a~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p-~~~kgy~RKg~al~~mk~ydkAleay~eale~--dp~~~e~~~~~~r  468 (539)
T KOG0548|consen  392 ARLYSNRAACYLKLGEYPEALKDAKKCIELDP-NFIKAYLRKGAALRAMKEYDKALEAYQEALEL--DPSNAEAIDGYRR  468 (539)
T ss_pred             hHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CchhHHHHHHHHH
Confidence            99999999999999999999999988888765 45666777777888889999999999999984  6777766666665


Q ss_pred             Hhh
Q 027412          212 NLQ  214 (223)
Q Consensus       212 ~~~  214 (223)
                      |..
T Consensus       469 c~~  471 (539)
T KOG0548|consen  469 CVE  471 (539)
T ss_pred             HHH
Confidence            555

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.85  E-value=3.8e-06  Score=57.52  Aligned_cols=156  Identities=18%  Similarity=0.117  Sum_probs=120.5

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      ..|+.+.|..+++.+.++- +.+..+-..-...+-..|++++|+++++.+.+.+ +.|..++.-=+-..-..|+.-+|++
T Consensus        64 d~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk  141 (289)
T KOG3060|consen   64 DTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIK  141 (289)
T ss_pred             HhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHH
Confidence            4678899999999988774 3344443333444666899999999999999886 3366666655555566788788998


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC---CHHHHHHHHHHHHh
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG---LMEEALYAFHCALD  160 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~  160 (223)
                      -+....+.-+. |...|.-+...|...|++++|.-+++++.-.. |.++..+..+...+.-.|   +.+.+.+.|.+.++
T Consensus       142 ~ln~YL~~F~~-D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alk  219 (289)
T KOG3060|consen  142 ELNEYLDKFMN-DQEAWHELAEIYLSEGDFEKAAFCLEELLLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALK  219 (289)
T ss_pred             HHHHHHHHhcC-cHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            88888877454 99999999999999999999999999999864 666667777777766554   56678899999888


Q ss_pred             CCC
Q 027412          161 NHL  163 (223)
Q Consensus       161 ~~~  163 (223)
                      ..+
T Consensus       220 l~~  222 (289)
T KOG3060|consen  220 LNP  222 (289)
T ss_pred             hCh
Confidence            654

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

Probab=98.84  E-value=4.4e-06  Score=57.65  Aligned_cols=143  Identities=16%  Similarity=0.142  Sum_probs=109.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK  144 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  144 (223)
                      ...-...|+..+++++|++......      +......=..++.+..+.+-|.+.+++|.+.+   +..+.+.|..++.+
T Consensus       111 ~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~  181 (299)
T KOG3081|consen  111 LLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVK  181 (299)
T ss_pred             HHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHH
Confidence            3344556788899999999887621      34444444566778888999999999998753   66788878777765


Q ss_pred             ----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCC
Q 027412          145 ----RGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGS  218 (223)
Q Consensus       145 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  218 (223)
                          .+.+.+|.-+|+++-+. ..|++.+.+..+.++...|++++|..++++.+... .-++.+...++-+....|..
T Consensus       182 la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd-~~dpetL~Nliv~a~~~Gkd  257 (299)
T KOG3081|consen  182 LATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-AKDPETLANLIVLALHLGKD  257 (299)
T ss_pred             HhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-CCCHHHHHHHHHHHHHhCCC
Confidence                46789999999999764 34899999999999999999999999999999862 34456666666666665554

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

Probab=98.82  E-value=6.7e-06  Score=61.36  Aligned_cols=189  Identities=14%  Similarity=0.165  Sum_probs=112.1

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      .|++..|.++|++-.+-  .|+...|++.+..=.+.+.++.|..+|++..-.  .|++..|--....-.+.|+...+..+
T Consensus       154 LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~V  229 (677)
T KOG1915|consen  154 LGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSV  229 (677)
T ss_pred             hcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHH
Confidence            35666666666665544  566666666666666666666666666666533  45666666666666666666666666


Q ss_pred             HHHHHhc-CC-CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC--hhHHHHHHHHHHhcCCHHHHHHH------
Q 027412           85 FSKMLEK-GP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN--IVSYSILIDGLCKRGLMEEALYA------  154 (223)
Q Consensus        85 ~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~------  154 (223)
                      |+..... |- ..+...+.++...-.+.+.++.|.-+|+-++.. +|.+  ...|..+...--+-|+.......      
T Consensus       230 yerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk  308 (677)
T KOG1915|consen  230 YERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRK  308 (677)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhh
Confidence            6655443 10 112234444444444556666666666666654 2333  33444444433344544333322      


Q ss_pred             --HHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCC
Q 027412          155 --FHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMP  200 (223)
Q Consensus       155 --~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  200 (223)
                        ++...+.++ -|..+|--.+..-...|+.+...++|++.+.. ++|
T Consensus       309 ~qYE~~v~~np-~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp  354 (677)
T KOG1915|consen  309 FQYEKEVSKNP-YNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPP  354 (677)
T ss_pred             hHHHHHHHhCC-CCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCc
Confidence              233334443 47788888888888889999999999998875 455

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

Probab=98.81  E-value=2.3e-06  Score=69.57  Aligned_cols=130  Identities=11%  Similarity=0.083  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLC  143 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  143 (223)
                      ++..++.+|-+.|+.+++...++++++.++. |+.+.|.+...|... +.++|.+++.++...               +.
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~i  180 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------FI  180 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------HH
Confidence            4444555555556666666666666655544 555555555555555 555555555554432               11


Q ss_pred             hcCCHHHHHHHHHHHHhCC-------------------CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc-hh
Q 027412          144 KRGLMEEALYAFHCALDNH-------------------LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD-GL  203 (223)
Q Consensus       144 ~~~~~~~a~~~~~~~~~~~-------------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~  203 (223)
                      ..+++..+.++|.++....                   ...-..++..+...|...++|+++..+++.+++.  .|+ ..
T Consensus       181 ~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~--~~~n~~  258 (906)
T PRK14720        181 KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEH--DNKNNK  258 (906)
T ss_pred             hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhc--CCcchh
Confidence            1122222222222222211                   1112234444556666777777888888777774  333 23


Q ss_pred             hHHHHhhhH
Q 027412          204 LLSTLADYN  212 (223)
Q Consensus       204 ~~~~l~~~~  212 (223)
                      ...-++.+|
T Consensus       259 a~~~l~~~y  267 (906)
T PRK14720        259 AREELIRFY  267 (906)
T ss_pred             hHHHHHHHH
Confidence            344444444

>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=98.81  E-value=3.3e-07  Score=54.10  Aligned_cols=88  Identities=32%  Similarity=0.385  Sum_probs=34.6

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCH
Q 027412           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLM  148 (223)
Q Consensus        69 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  148 (223)
                      ...+...|++++|...+++..+..+. +...+..+..++...+++++|...++...... +.+..++..+...+...|++
T Consensus         7 a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~   84 (100)
T cd00189           7 GNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKY   84 (100)
T ss_pred             HHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhH
Confidence            33333344444444444444333222 22333334444444444444444444443332 22223333444444444444


Q ss_pred             HHHHHHHHHH
Q 027412          149 EEALYAFHCA  158 (223)
Q Consensus       149 ~~a~~~~~~~  158 (223)
                      +.|...+...
T Consensus        85 ~~a~~~~~~~   94 (100)
T cd00189          85 EEALEAYEKA   94 (100)
T ss_pred             HHHHHHHHHH
Confidence            4444444333

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

Probab=98.80  E-value=2.1e-06  Score=69.74  Aligned_cols=155  Identities=15%  Similarity=0.157  Sum_probs=114.6

Q ss_pred             CCCc-CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC------
Q 027412           22 GLEP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK------   94 (223)
Q Consensus        22 ~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------   94 (223)
                      ++.| +...+..|+..+...+++++|.++.+...+..+. ....|..++..+.+.++..++.-+  .+...-..      
T Consensus        25 ~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~-~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~  101 (906)
T PRK14720         25 NYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKK-SISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAI  101 (906)
T ss_pred             cCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCc-ceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhH
Confidence            3444 4678999999999999999999999987766422 344454455566666666655544  22222111      


Q ss_pred             ------------ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           95 ------------ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        95 ------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                                  -+..++..++.+|-+.|+.+++..+++++.+.+ +-|..+.|.+...|... ++++|.+++.+.... 
T Consensus       102 ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~-  178 (906)
T PRK14720        102 VEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR-  178 (906)
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH-
Confidence                        123567778999999999999999999999987 78899999999999999 999999999887653 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          163 LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       163 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                                    +...+++..+..+|.++...
T Consensus       179 --------------~i~~kq~~~~~e~W~k~~~~  198 (906)
T PRK14720        179 --------------FIKKKQYVGIEEIWSKLVHY  198 (906)
T ss_pred             --------------HHhhhcchHHHHHHHHHHhc
Confidence                          44555666777777777663

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.78  E-value=8.9e-07  Score=56.61  Aligned_cols=97  Identities=8%  Similarity=-0.066  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      .....+...+...|++++|.++|+.+...++. +...|-.|..++-..|++++|+..|......+ +.|+..+-.+..++
T Consensus        36 ~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~  113 (157)
T PRK15363         36 NTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHH
Confidence            34445666667788888888888888887776 67777778888888888888888888888776 56778888888888


Q ss_pred             HhcCCHHHHHHHHHHHHhC
Q 027412          143 CKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~  161 (223)
                      ...|+.+.|.+.|+..+..
T Consensus       114 L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            8888888888888876653

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

Probab=98.78  E-value=9.8e-08  Score=75.46  Aligned_cols=163  Identities=19%  Similarity=0.203  Sum_probs=108.0

Q ss_pred             HHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcC------------------------CCccHHHHHHH
Q 027412           48 QLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKG------------------------PKANVVTYSCL  103 (223)
Q Consensus        48 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------------------------~~~~~~~~~~l  103 (223)
                      .++-.+...|+.|+..||..++.-|+..|+.+.|- +|.-|..+.                        -.|...+|..|
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~L   89 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNL   89 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHH
Confidence            35566778899999999999999999999999887 776664321                        13567899999


Q ss_pred             HHHHHhhCChhH---HHHHHHHHH----HCCCCCChhHH--------------HHHHHHHHhcCCHHHHHHHH-------
Q 027412          104 IDGYFKSQNMKS---AFDVYEEMC----ENNISPNIVSY--------------SILIDGLCKRGLMEEALYAF-------  155 (223)
Q Consensus       104 ~~~~~~~~~~~~---a~~~~~~~~----~~~~~~~~~~~--------------~~l~~~~~~~~~~~~a~~~~-------  155 (223)
                      ..+|...||...   +.+.++.+.    ..|+.....-+              ...+......|.++.+++++       
T Consensus        90 l~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa  169 (1088)
T KOG4318|consen   90 LKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSA  169 (1088)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCccc
Confidence            999999999765   333222222    22221100000              11112222223333333332       


Q ss_pred             -----------------------HHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhh
Q 027412          156 -----------------------HCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADY  211 (223)
Q Consensus       156 -----------------------~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  211 (223)
                                             .......-.|++.+|..++.+-...|+.+.|..++.+|.+.|+..+..-|..|+-+
T Consensus       170 ~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g  248 (1088)
T KOG4318|consen  170 WNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG  248 (1088)
T ss_pred             ccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc
Confidence                                   11111111378999999999999999999999999999999999988877766544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.77  E-value=1e-06  Score=63.28  Aligned_cols=195  Identities=13%  Similarity=0.093  Sum_probs=115.9

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCc-------hhHHHHHHHHHHhCCCCCc-HHHHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNR-------LDEAVQLFEKLTCVQLKPN-SITFTILIDAFC   73 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~   73 (223)
                      |.+.+++++|..+.+.+.    +.++.-|..-.-.++..|+       ..-|...|+-.-+.+..-| +.--.++..++.
T Consensus       295 yL~q~dVqeA~~L~Kdl~----PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fF  370 (557)
T KOG3785|consen  295 YLNQNDVQEAISLCKDLD----PTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFF  370 (557)
T ss_pred             ecccccHHHHHHHHhhcC----CCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHH
Confidence            457788888888877655    2234444333333444443       3345555554433332222 222344555555


Q ss_pred             hcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHH
Q 027412           74 KEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALY  153 (223)
Q Consensus        74 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  153 (223)
                      -..++++++.++..+..--...|...+| +..+++..|++.+|.++|-.+....++.+..-...+.++|.+.+.++.|+.
T Consensus       371 L~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~  449 (557)
T KOG3785|consen  371 LSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWD  449 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHH
Confidence            5667788887777776654443444444 788888888888888888776654444444444566778888888888887


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhH
Q 027412          154 AFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLL  205 (223)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  205 (223)
                      ++-++...+  ........+..-|.+.+.+--|.+.|+.+..  ..|++.-|
T Consensus       450 ~~lk~~t~~--e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~--lDP~pEnW  497 (557)
T KOG3785|consen  450 MMLKTNTPS--ERFSLLQLIANDCYKANEFYYAAKAFDELEI--LDPTPENW  497 (557)
T ss_pred             HHHhcCCch--hHHHHHHHHHHHHHHHHHHHHHHHhhhHHHc--cCCCcccc
Confidence            775543211  1122334455667777877777777777766  45665544

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

Probab=98.77  E-value=1e-05  Score=60.39  Aligned_cols=186  Identities=12%  Similarity=0.116  Sum_probs=148.1

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      .+++..|.++|++.+.-.. .+...|...+.+=.+.+.+..|..++++....-+..| ..|...+.+--..|++..|.++
T Consensus        86 q~e~~RARSv~ERALdvd~-r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   86 QKEIQRARSVFERALDVDY-RNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             HHHHHHHHHHHHHHHhccc-ccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHHHHHhcccHHHHHH
Confidence            4678899999999987653 3677888888888899999999999999886543333 3344455555567999999999


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL-  163 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-  163 (223)
                      |++-..  ..|+...|.+.+..-.+.+.++.|..+++...-  +.|++.+|.-.+..-.+.|....+..+|+.+.+.-- 
T Consensus       164 ferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~  239 (677)
T KOG1915|consen  164 FERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGD  239 (677)
T ss_pred             HHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhh
Confidence            998876  578999999999999999999999999999887  469999999999999999999999999998876411 


Q ss_pred             -CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          164 -LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       164 -~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                       ..+...+.+.+.-=.++..++.|..+|+-.++.
T Consensus       240 d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~  273 (677)
T KOG1915|consen  240 DEEAEILFVAFAEFEERQKEYERARFIYKYALDH  273 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence             123344555555556778889999999888875

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.76  E-value=1.3e-06  Score=54.19  Aligned_cols=95  Identities=18%  Similarity=0.116  Sum_probs=41.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCc--cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC--CCChhHHHHHHHHH
Q 027412           67 ILIDAFCKEGRMDDATMMFSKMLEKGPKA--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI--SPNIVSYSILIDGL  142 (223)
Q Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~  142 (223)
                      .++..+.+.|++++|...|..+....+..  ....+..+..++.+.|+++.|...++.+....-  +....++..+..++
T Consensus         7 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~   86 (119)
T TIGR02795         7 DAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSL   86 (119)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHH
Confidence            34444444455555555554444433210  122333344445555555555555554443210  01123344444444


Q ss_pred             HhcCCHHHHHHHHHHHHhC
Q 027412          143 CKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~  161 (223)
                      .+.|++++|...++++.+.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        87 QELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHhCChHHHHHHHHHHHHH
Confidence            5555555555555554444

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=98.76  E-value=4.8e-08  Score=56.77  Aligned_cols=79  Identities=25%  Similarity=0.352  Sum_probs=34.6

Q ss_pred             CChhHHHHHHHHHHhcCCC-ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHH
Q 027412           76 GRMDDATMMFSKMLEKGPK-ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYA  154 (223)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  154 (223)
                      |+++.|+.+++++.+..+. ++...+..+..++.+.|++++|..++++ .+.+ +.+......+..++.+.|++++|++.
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            4455555555555554432 1233333345555555555555555544 2111 11223333334555555555555555


Q ss_pred             HH
Q 027412          155 FH  156 (223)
Q Consensus       155 ~~  156 (223)
                      ++
T Consensus        81 l~   82 (84)
T PF12895_consen   81 LE   82 (84)
T ss_dssp             HH
T ss_pred             Hh
Confidence            44

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

Probab=98.76  E-value=7.8e-06  Score=68.12  Aligned_cols=200  Identities=15%  Similarity=0.130  Sum_probs=154.4

Q ss_pred             HHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhC-CCCC---cHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 027412           13 KLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-QLKP---NSITFTILIDAFCKEGRMDDATMMFSKM   88 (223)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~   88 (223)
                      +=|+++.... +.+...|...|......++.++|.++.+++... ++.-   -...|.++++.-..-|.-+...++|++.
T Consensus      1445 eDferlvrss-PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRA 1523 (1710)
T KOG1070|consen 1445 EDFERLVRSS-PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERA 1523 (1710)
T ss_pred             HHHHHHHhcC-CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHH
Confidence            3355555443 335667999999999999999999999998643 2211   1246777777776778888899999999


Q ss_pred             HhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCH
Q 027412           89 LEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL-PDV  167 (223)
Q Consensus        89 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~  167 (223)
                      .+.. . ....|..|...|.+.+.+++|.++++.|.+. +......|...+..+.++++-+.|..++.++++.-++ -..
T Consensus      1524 cqyc-d-~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv 1600 (1710)
T KOG1070|consen 1524 CQYC-D-AYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHV 1600 (1710)
T ss_pred             HHhc-c-hHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhH
Confidence            8752 2 3567888999999999999999999999976 3467889999999999999999999999998875332 234


Q ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhhcCCC
Q 027412          168 VTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGS  218 (223)
Q Consensus       168 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~  218 (223)
                      ....-.+..-.+.|+.+.+..+|+..+..  .|. ...|+..++.=.+.++.
T Consensus      1601 ~~IskfAqLEFk~GDaeRGRtlfEgll~a--yPKRtDlW~VYid~eik~~~~ 1650 (1710)
T KOG1070|consen 1601 EFISKFAQLEFKYGDAERGRTLFEGLLSA--YPKRTDLWSVYIDMEIKHGDI 1650 (1710)
T ss_pred             HHHHHHHHHHhhcCCchhhHHHHHHHHhh--CccchhHHHHHHHHHHccCCH
Confidence            55666677778999999999999999875  343 45677777777766654

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.75  E-value=6.8e-07  Score=66.34  Aligned_cols=94  Identities=13%  Similarity=0.032  Sum_probs=81.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC
Q 027412           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL  147 (223)
Q Consensus        68 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  147 (223)
                      ....+...|++++|+..|++.++.++. +...|..+..++...|++++|+..++++.... +.+...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            455667789999999999999998776 78888889999999999999999999998875 5677888899999999999


Q ss_pred             HHHHHHHHHHHHhCCC
Q 027412          148 MEEALYAFHCALDNHL  163 (223)
Q Consensus       148 ~~~a~~~~~~~~~~~~  163 (223)
                      +++|...|++.++.++
T Consensus        86 ~~eA~~~~~~al~l~P  101 (356)
T PLN03088         86 YQTAKAALEKGASLAP  101 (356)
T ss_pred             HHHHHHHHHHHHHhCC
Confidence            9999999999988764

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

Probab=98.75  E-value=9.7e-06  Score=62.47  Aligned_cols=203  Identities=15%  Similarity=0.113  Sum_probs=139.3

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      .-|+-++|.+....-.+.++. +.+.|..+.-.+...+++++|++.|..+...+. .|...+.-+...-.+.++++....
T Consensus        53 ~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~-dN~qilrDlslLQ~QmRd~~~~~~  130 (700)
T KOG1156|consen   53 CLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEK-DNLQILRDLSLLQIQMRDYEGYLE  130 (700)
T ss_pred             cccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHHHhhhhHHH
Confidence            446677777777666665433 566777777777777778888888877776653 366667666666667777777777


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC-CCCChhHHHHHH------HHHHhcCCHHHHHHHHH
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN-ISPNIVSYSILI------DGLCKRGLMEEALYAFH  156 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~------~~~~~~~~~~~a~~~~~  156 (223)
                      ...+..+..+. ....|..++.++.-.|++..|..+++...+.. -.|+...+....      ....+.|..+.|.+.+.
T Consensus       131 tr~~LLql~~~-~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~  209 (700)
T KOG1156|consen  131 TRNQLLQLRPS-QRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLL  209 (700)
T ss_pred             HHHHHHHhhhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHH
Confidence            77777666444 56778888888899999999999999888653 246655554332      33456777888877775


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhH
Q 027412          157 CALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN  212 (223)
Q Consensus       157 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  212 (223)
                      .-.. .+.-....-..-...+.+.+++++|..++..++..  .||...|...+..+
T Consensus       210 ~~e~-~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~  262 (700)
T KOG1156|consen  210 DNEK-QIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKA  262 (700)
T ss_pred             hhhh-HHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHH
Confidence            4432 22112223345566788999999999999999985  78877776555443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.75  E-value=1.3e-05  Score=57.55  Aligned_cols=195  Identities=13%  Similarity=0.128  Sum_probs=147.2

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHH-HHHHHHHHHhcCChhH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSIT-FTILIDAFCKEGRMDD   80 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~   80 (223)
                      +..+|++..|+.-|...++-++. +-.++..-...|...|+...|+.=+.+..+.  +||-.. -..-...+.+.|.+++
T Consensus        48 lla~~Q~sDALt~yHaAve~dp~-~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~Gele~  124 (504)
T KOG0624|consen   48 LLARGQLSDALTHYHAAVEGDPN-NYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQGELEQ  124 (504)
T ss_pred             HHHhhhHHHHHHHHHHHHcCCch-hHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcccHHH
Confidence            34578899999999888865211 2223334456788889999998888888876  566432 2233456778999999


Q ss_pred             HHHHHHHHHhcCCCccH--------------HHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC
Q 027412           81 ATMMFSKMLEKGPKANV--------------VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG  146 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~--------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  146 (223)
                      |..=|+..++..+..+.              ......+..+.-.|+...|+.....+++.. +.|...+..-..+|...|
T Consensus       125 A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~  203 (504)
T KOG0624|consen  125 AEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEG  203 (504)
T ss_pred             HHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcC
Confidence            99999999886553111              123334566777899999999999999875 788899999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          147 LMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       147 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                      ++..|+.-++...+..- .++.++.-+...+...|+.+.++...++.++  +.||-.
T Consensus       204 e~k~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK  257 (504)
T KOG0624|consen  204 EPKKAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHK  257 (504)
T ss_pred             cHHHHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchh
Confidence            99999988887766544 4777777888889999999999999999887  567643

>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=98.74  E-value=5.4e-07  Score=53.15  Aligned_cols=96  Identities=28%  Similarity=0.334  Sum_probs=81.9

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYC  178 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  178 (223)
                      .+..+...+...|++++|...++.+.+.. +.+...+..+...+...+++++|.+.++...+..+ .+..++..+...+.
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~   79 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDP-DNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC-cchhHHHHHHHHHH
Confidence            35667888889999999999999998764 55567888899999999999999999999887665 35578888999999


Q ss_pred             hcCCcchHHHHHHHHHHC
Q 027412          179 KAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       179 ~~g~~~~a~~~~~~~~~~  196 (223)
                      ..|++++|...+.+..+.
T Consensus        80 ~~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          80 KLGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHHhHHHHHHHHHHHHcc
Confidence            999999999999988763

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.71  E-value=2.3e-06  Score=53.06  Aligned_cols=98  Identities=16%  Similarity=0.119  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCC--CcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCc--cHHHHHHHH
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLK--PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKA--NVVTYSCLI  104 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~  104 (223)
                      ++..++..+.+.|++++|...++.+.+....  .....+..+..++.+.|+++.|...++.+....+..  ....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3444445555555555555555555443211  012334445555555555555555555555443321  123444455


Q ss_pred             HHHHhhCChhHHHHHHHHHHHC
Q 027412          105 DGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus       105 ~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      .++...|++++|...++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            5555555555555555555544

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.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.71  E-value=1.2e-06  Score=58.06  Aligned_cols=63  Identities=19%  Similarity=0.148  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC--cHHHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP--NSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   91 (223)
                      .+..+...+...|++++|...|++.......+  ...++..+..++...|++++|...+++....
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            33444444444455555555554444332111  1223444444444444555554444444443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.71  E-value=1.6e-06  Score=55.53  Aligned_cols=98  Identities=11%  Similarity=0.064  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (223)
                      ......+...+...|++++|..+|+.+....+. +..-|..|..++...|++++|+..|......++. ++..+..+..+
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c  112 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHH
Confidence            445566777788899999999999999877644 6777888999999999999999999999999886 89999999999


Q ss_pred             HHhhCChhHHHHHHHHHHHC
Q 027412          107 YFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~  126 (223)
                      +...|+.+.|.+.|+..+..
T Consensus       113 ~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        113 YLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999988864

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.70  E-value=2.2e-06  Score=63.69  Aligned_cols=94  Identities=16%  Similarity=0.076  Sum_probs=83.1

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC
Q 027412           32 TIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ  111 (223)
Q Consensus        32 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  111 (223)
                      .-...+...|++++|++.|.++.+.... +...|..+..+|...|++++|+..+++.+..++. +...|..+..+|...|
T Consensus         7 ~~a~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          7 DKAKEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhC
Confidence            3456677889999999999999987644 7788889999999999999999999999998776 7788999999999999


Q ss_pred             ChhHHHHHHHHHHHCC
Q 027412          112 NMKSAFDVYEEMCENN  127 (223)
Q Consensus       112 ~~~~a~~~~~~~~~~~  127 (223)
                      ++++|...|+++.+.+
T Consensus        85 ~~~eA~~~~~~al~l~  100 (356)
T PLN03088         85 EYQTAKAALEKGASLA  100 (356)
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            9999999999999864

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.70  E-value=6.9e-06  Score=63.79  Aligned_cols=145  Identities=16%  Similarity=0.164  Sum_probs=95.5

Q ss_pred             CCCcHHHHHHHHHHHHhc-----CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC--------ChhHHHHHHHHHH
Q 027412           58 LKPNSITFTILIDAFCKE-----GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ--------NMKSAFDVYEEMC  124 (223)
Q Consensus        58 ~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~  124 (223)
                      .+.+...|...+++....     ++...|..+|++..+.+|. +...|..+..++....        +...+.+..++..
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~-~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPD-FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            355667777777765432     2366788888888887665 5556665544443321        1223334444333


Q ss_pred             HC-CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          125 EN-NISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       125 ~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                      .. ..+.+...+..+.......|++++|...++++.+.+  |+...|..+...+...|++++|...+++...  +.|...
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~--L~P~~p  487 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFN--LRPGEN  487 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCCc
Confidence            32 124455677777777777888888888888888776  4677888888888888888888888888877  466665


Q ss_pred             hHHH
Q 027412          204 LLST  207 (223)
Q Consensus       204 ~~~~  207 (223)
                      ||..
T Consensus       488 t~~~  491 (517)
T PRK10153        488 TLYW  491 (517)
T ss_pred             hHHH
Confidence            5543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.70  E-value=1.5e-06  Score=57.56  Aligned_cols=94  Identities=13%  Similarity=-0.047  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCc--cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHH
Q 027412           62 SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKA--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILI  139 (223)
Q Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  139 (223)
                      ...+..++..+...|++++|+..|++.....+.+  ...++..+..++...|++++|...++...... +....++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            4556667777777788888888888877654332  23467777788888888888888888877653 44455566666


Q ss_pred             HHHH-------hcCCHHHHHHHHH
Q 027412          140 DGLC-------KRGLMEEALYAFH  156 (223)
Q Consensus       140 ~~~~-------~~~~~~~a~~~~~  156 (223)
                      ..+.       ..|+++.|...++
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHH
Confidence            6665       5555554444433

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.69  E-value=1.7e-05  Score=62.25  Aligned_cols=116  Identities=22%  Similarity=0.112  Sum_probs=73.3

Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 027412          100 YSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCK  179 (223)
Q Consensus       100 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  179 (223)
                      |......+.+.++.++|...+.++.... +.....|......+...|.+++|.+.|......++ -++.....+..++.+
T Consensus       653 wllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP-~hv~s~~Ala~~lle  730 (799)
T KOG4162|consen  653 WLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDP-DHVPSMTALAELLLE  730 (799)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHH
Confidence            4455666677777777777777776653 55566666666777777777777777777666554 255566677777777


Q ss_pred             cCCcchHHH--HHHHHHHCCCCCc-hhhHHHHhhhHhhcCCCc
Q 027412          180 AGRPTEAMQ--LYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQ  219 (223)
Q Consensus       180 ~g~~~~a~~--~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~  219 (223)
                      .|+..-|..  ++.++.+.  .|+ ...|..+-..+-+.|+.+
T Consensus       731 ~G~~~la~~~~~L~dalr~--dp~n~eaW~~LG~v~k~~Gd~~  771 (799)
T KOG4162|consen  731 LGSPRLAEKRSLLSDALRL--DPLNHEAWYYLGEVFKKLGDSK  771 (799)
T ss_pred             hCCcchHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHccchH
Confidence            777666666  66776663  444 334444444444444444

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.69  E-value=6.3e-07  Score=62.67  Aligned_cols=86  Identities=23%  Similarity=0.238  Sum_probs=43.7

Q ss_pred             HhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHH
Q 027412           73 CKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEAL  152 (223)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  152 (223)
                      .+.+++++|+..|.+.+...|. |.+.|..-..+|.+.|+++.|++-.+..+..+ +....+|..|..+|...|++++|.
T Consensus        92 m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A~  169 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEAI  169 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHHH
Confidence            3445555555555555554444 45555555555555555555555555554433 333445555555555555555555


Q ss_pred             HHHHHHHh
Q 027412          153 YAFHCALD  160 (223)
Q Consensus       153 ~~~~~~~~  160 (223)
                      +.|++.++
T Consensus       170 ~aykKaLe  177 (304)
T KOG0553|consen  170 EAYKKALE  177 (304)
T ss_pred             HHHHhhhc
Confidence            55555444

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.68  E-value=9.4e-08  Score=55.52  Aligned_cols=81  Identities=19%  Similarity=0.309  Sum_probs=37.4

Q ss_pred             ccCHHHHHHHHHHHhhCCCC-cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLE-PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      .|+++.|+.+|+++.+.... ++...+..+..++.+.|++++|..++++ .+.+. .+......+..++.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            35555555555555554221 1233334455555555555555555555 21211 122333344555555555555555


Q ss_pred             HHHH
Q 027412           84 MFSK   87 (223)
Q Consensus        84 ~~~~   87 (223)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            5543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.66  E-value=7.2e-06  Score=54.57  Aligned_cols=84  Identities=14%  Similarity=0.056  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCcc--HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN--VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDG  141 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  141 (223)
                      .+..+...+...|++++|...|++..+..+.+.  ...+..+..++.+.|++++|...+++..... +.+...+..+..+
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~  115 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            445555555556666666666666554433221  2455555666666666666666666665542 3344455555555


Q ss_pred             HHhcCCH
Q 027412          142 LCKRGLM  148 (223)
Q Consensus       142 ~~~~~~~  148 (223)
                      +...|+.
T Consensus       116 ~~~~g~~  122 (172)
T PRK02603        116 YHKRGEK  122 (172)
T ss_pred             HHHcCCh
Confidence            5555553

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.66  E-value=6.9e-06  Score=54.66  Aligned_cols=94  Identities=17%  Similarity=0.151  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCc--HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN--SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (223)
                      ...+..+...+...|++++|...|++..+....+.  ...+..+..++.+.|++++|...+++..+..+. +...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHH
Confidence            45678888889999999999999999987643332  467888999999999999999999999987665 677778888


Q ss_pred             HHHHhhCChhHHHHHHH
Q 027412          105 DGYFKSQNMKSAFDVYE  121 (223)
Q Consensus       105 ~~~~~~~~~~~a~~~~~  121 (223)
                      .++...|+...+..-++
T Consensus       114 ~~~~~~g~~~~a~~~~~  130 (172)
T PRK02603        114 VIYHKRGEKAEEAGDQD  130 (172)
T ss_pred             HHHHHcCChHhHhhCHH
Confidence            88888887655444333

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.66  E-value=1.3e-06  Score=65.41  Aligned_cols=119  Identities=14%  Similarity=0.190  Sum_probs=59.7

Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHHHhc--CCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHH
Q 027412           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEK--GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSIL  138 (223)
Q Consensus        61 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  138 (223)
                      +......+++.+....+.+.+..++.+.+..  ....-..|..++++.|...|..+.++.+++.=...|+.||..+++.+
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            4444444455554445555555555555443  11111233345555555555555555555555555555555555555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 027412          139 IDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCK  179 (223)
Q Consensus       139 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  179 (223)
                      +..+.+.|++..|.++...|...+...+..|+...+.+|.+
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            55555555555555555555544433444444444444333

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 [].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.66  E-value=2e-06  Score=61.77  Aligned_cols=131  Identities=12%  Similarity=0.082  Sum_probs=84.6

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh-cCChhHHHHHHHHHHhcCCCccHHHHHHHHHH
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK-EGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (223)
                      .+|..+++..-+.+..+.|..+|.+..+.+ ..+..+|......-.. .++.+.|.++|+...+.-+. +...|...+..
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-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPS-DPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT--HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHH
Confidence            357777777777777888888888877443 2234444444444223 45666688888877776443 67777777777


Q ss_pred             HHhhCChhHHHHHHHHHHHCCCCCCh---hHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412          107 YFKSQNMKSAFDVYEEMCENNISPNI---VSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      +...++.+.|..+|+..... ++++.   ..|...+..=.+.|+++.+.++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            77788888888888877754 33322   47777777777777877777777777664

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=98.65  E-value=2.9e-05  Score=59.37  Aligned_cols=189  Identities=14%  Similarity=0.128  Sum_probs=127.0

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|.+...++...+ +.+...+..-+-+..+.+++++|+.+.+.-...  ..+...+-.=.-+..+.+..++|
T Consensus        22 ~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~Dea   98 (652)
T KOG2376|consen   22 HGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLDEA   98 (652)
T ss_pred             hccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHHHH
Confidence            456789999999999999876 446677777777889999999999666554321  11111111223344578999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCC----------------------------C--C
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS----------------------------P--N  131 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------------------------~--~  131 (223)
                      +..++-..   . .+..+...-...+.+.+++++|..+|+.+.+++.+                            |  +
T Consensus        99 lk~~~~~~---~-~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~s  174 (652)
T KOG2376|consen   99 LKTLKGLD---R-LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDS  174 (652)
T ss_pred             HHHHhccc---c-cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcch
Confidence            99888321   1 13446666788899999999999999998665422                            1  1


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhC--------CCC-----CCHH-HHHHHHHHHHhcCCcchHHHHHHHHHHCC
Q 027412          132 IVSYSILIDGLCKRGLMEEALYAFHCALDN--------HLL-----PDVV-TYAILIRGYCKAGRPTEAMQLYDSMLRNG  197 (223)
Q Consensus       132 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~-----~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  197 (223)
                      ...+......+...|++.+|+++++...+.        ...     -... .-..+.-++...|+-++|..++...++..
T Consensus       175 yel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~  254 (652)
T KOG2376|consen  175 YELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRN  254 (652)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc
Confidence            112233445566789999999999988321        110     0111 12335556778899999999999998874

>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=1.7e-06  Score=64.73  Aligned_cols=120  Identities=12%  Similarity=0.119  Sum_probs=75.0

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHHC--CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN--NISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAIL  173 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  173 (223)
                      +......++..+....+.+.+..++-+.+..  ....-..|..++++.|.+.|..+.++.++..=...|+-||..+++.+
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            4555555666666666666666666666543  11122334456677777777777777777666666766777777777


Q ss_pred             HHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhc
Q 027412          174 IRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQS  215 (223)
Q Consensus       174 ~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  215 (223)
                      +..+.+.|++..|.++..+|...+...+..|+..-+.+|.+-
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            777777777777777776666665555556666555555544

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 [].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.63  E-value=7.6e-06  Score=57.61  Aligned_cols=122  Identities=16%  Similarity=0.157  Sum_probs=99.7

Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc---CCHHHHHHHHHHHHhC
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR---GLMEEALYAFHCALDN  161 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~  161 (223)
                      ++.-...+|. |...|-.|..+|...|+++.|...|.+..+.. +++...+..+..++...   ....++..+|++++..
T Consensus       145 Le~~L~~nP~-d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~  222 (287)
T COG4235         145 LETHLQQNPG-DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL  222 (287)
T ss_pred             HHHHHHhCCC-CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc
Confidence            3444455676 89999999999999999999999999999875 77888888888877654   3456899999999988


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhh
Q 027412          162 HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADY  211 (223)
Q Consensus       162 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  211 (223)
                      ++ -|+.+...+...+...|++.+|...|+.|++.  .|.......+++.
T Consensus       223 D~-~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie~  269 (287)
T COG4235         223 DP-ANIRALSLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIER  269 (287)
T ss_pred             CC-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHHH
Confidence            76 58889999999999999999999999999985  4444455555544

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.61  E-value=8.1e-08  Score=45.60  Aligned_cols=33  Identities=58%  Similarity=1.013  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc
Q 027412          169 TYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD  201 (223)
Q Consensus       169 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  201 (223)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            456666666666666666666666666666555

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.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.61  E-value=3.7e-06  Score=58.94  Aligned_cols=101  Identities=25%  Similarity=0.281  Sum_probs=49.9

Q ss_pred             HhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHH
Q 027412          108 FKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAM  187 (223)
Q Consensus       108 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  187 (223)
                      .+.++|++|+..|.++++.. |-|...|..-..+|.+.|.++.|++-.+..+..++ -...+|..|..+|...|++++|+
T Consensus        92 m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp-~yskay~RLG~A~~~~gk~~~A~  169 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDP-HYSKAYGRLGLAYLALGKYEEAI  169 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcCh-HHHHHHHHHHHHHHccCcHHHHH
Confidence            34455555555555555543 34444444555555555555555555555444433 13345555555555555555555


Q ss_pred             HHHHHHHHCCCCCchhhHHHHhhhH
Q 027412          188 QLYDSMLRNGIMPDGLLLSTLADYN  212 (223)
Q Consensus       188 ~~~~~~~~~~~~p~~~~~~~l~~~~  212 (223)
                      +.|++.++  +.|+..+|..=++..
T Consensus       170 ~aykKaLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  170 EAYKKALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHhhhc--cCCCcHHHHHHHHHH
Confidence            55555554  455555554444443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.60  E-value=6.2e-05  Score=52.88  Aligned_cols=167  Identities=13%  Similarity=0.095  Sum_probs=109.4

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHH--HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI--TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (223)
                      +...+-.....+...|++++|...|+++....+.....  ..-.++.++.+.+++++|...+++..+..|......+...
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            34444445556677899999999999998764432221  2245677888999999999999999988665433444444


Q ss_pred             HHHHHh--h---------------CC---hhHHHHHHHHHHHCCCCCChhHH------------------HHHHHHHHhc
Q 027412          104 IDGYFK--S---------------QN---MKSAFDVYEEMCENNISPNIVSY------------------SILIDGLCKR  145 (223)
Q Consensus       104 ~~~~~~--~---------------~~---~~~a~~~~~~~~~~~~~~~~~~~------------------~~l~~~~~~~  145 (223)
                      +.+.+.  .               .|   ..+|+..|+.+++.  -|++.-.                  ..+...|.+.
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~  188 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKR  188 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            444321  1               12   23566777777765  2332211                  2345567888


Q ss_pred             CCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 027412          146 GLMEEALYAFHCALDNH--LLPDVVTYAILIRGYCKAGRPTEAMQLYDSML  194 (223)
Q Consensus       146 ~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  194 (223)
                      |.+..|..-++.+.+.-  ..........++.+|...|..++|..+...+.
T Consensus       189 ~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        189 GAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             CchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            89988888888888642  22345667778888888999888888776554

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.58  E-value=3.6e-05  Score=55.34  Aligned_cols=159  Identities=15%  Similarity=0.105  Sum_probs=80.2

Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHH
Q 027412           37 YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSA  116 (223)
Q Consensus        37 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  116 (223)
                      +...|+...|+.....+.+.. +-|...+..-..+|...|++..|+.=++...+.... +..++..+...+...|+.+.+
T Consensus       165 ~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~s  242 (504)
T KOG0624|consen  165 ASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENS  242 (504)
T ss_pred             HhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHH
Confidence            334455666666666665543 235555555566666666666666555555444333 444445555566666666666


Q ss_pred             HHHHHHHHHCCCCCChhHHH----H-------H--HHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhc
Q 027412          117 FDVYEEMCENNISPNIVSYS----I-------L--IDGLCKRGLMEEALYAFHCALDNHLLPD---VVTYAILIRGYCKA  180 (223)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~----~-------l--~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~  180 (223)
                      +....+.++.  .||.....    .       +  +......++|.++++..+..++..+...   ...+..+-.++...
T Consensus       243 L~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d  320 (504)
T KOG0624|consen  243 LKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYRED  320 (504)
T ss_pred             HHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeeccccc
Confidence            6666665553  23322110    0       0  1112234455555555555544433211   12233444455556


Q ss_pred             CCcchHHHHHHHHHHCCCCCc
Q 027412          181 GRPTEAMQLYDSMLRNGIMPD  201 (223)
Q Consensus       181 g~~~~a~~~~~~~~~~~~~p~  201 (223)
                      |++.+|++...+.++  +.||
T Consensus       321 ~~~~eAiqqC~evL~--~d~~  339 (504)
T KOG0624|consen  321 EQFGEAIQQCKEVLD--IDPD  339 (504)
T ss_pred             CCHHHHHHHHHHHHh--cCch
Confidence            666666666666665  3454

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.57  E-value=1.4e-07  Score=44.52  Aligned_cols=32  Identities=47%  Similarity=0.852  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHCCCCC
Q 027412          169 TYAILIRGYCKAGRPTEAMQLYDSMLRNGIMP  200 (223)
Q Consensus       169 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  200 (223)
                      +|+.++.+|.+.|+++.|.++|++|.+.|+.|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            55666666666666666666666666655555

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.57  E-value=3.7e-05  Score=53.98  Aligned_cols=157  Identities=12%  Similarity=0.107  Sum_probs=108.1

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcC--HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHH--hcC--
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPD--IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFC--KEG--   76 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~--   76 (223)
                      .+.|++++|++.|+.+....+.+.  ....-.++.++.+.+++++|...+++..+..+......+...+.+.+  ..+  
T Consensus        43 ~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~  122 (243)
T PRK10866         43 LQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDS  122 (243)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchh
Confidence            467999999999999988743322  12235667888999999999999999988754332233333333322  111  


Q ss_pred             -------------C---hhHHHHHHHHHHhcCCCccHH----------------HHHHHHHHHHhhCChhHHHHHHHHHH
Q 027412           77 -------------R---MDDATMMFSKMLEKGPKANVV----------------TYSCLIDGYFKSQNMKSAFDVYEEMC  124 (223)
Q Consensus        77 -------------~---~~~a~~~~~~~~~~~~~~~~~----------------~~~~l~~~~~~~~~~~~a~~~~~~~~  124 (223)
                                   +   ..+|+..|+.+++.-|...-.                .--.+.+.|.+.|.+..|..-++.+.
T Consensus       123 ~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~  202 (243)
T PRK10866        123 ALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQML  202 (243)
T ss_pred             hhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHH
Confidence                         2   246778888888875542110                01235566889999999999999998


Q ss_pred             HC--CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412          125 EN--NISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       125 ~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      +.  +.+........++.+|...|..++|.++...+.
T Consensus       203 ~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        203 RDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            75  233445677888999999999999998876554

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.57  E-value=0.00011  Score=58.10  Aligned_cols=79  Identities=10%  Similarity=0.142  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 027412            9 DAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKM   88 (223)
Q Consensus         9 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   88 (223)
                      .++++.+++..+.+.. |+.+...+.--|+..++.+.|.+...+..+.+...+...|..+...+.-.+++.+|+.+.+..
T Consensus       461 ~kslqale~av~~d~~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~a  539 (799)
T KOG4162|consen  461 KKSLQALEEAVQFDPT-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAA  539 (799)
T ss_pred             HHHHHHHHHHHhcCCC-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            3455555555544322 222222333335555555566555555555544445555555555555555555555555443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.56  E-value=6.4e-06  Score=57.98  Aligned_cols=143  Identities=18%  Similarity=0.137  Sum_probs=81.9

Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCC-------------CCh-----
Q 027412           71 AFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS-------------PNI-----  132 (223)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------------~~~-----  132 (223)
                      ...+.|+++.|.+-|+...+.+--.....|+ +.-+..+.|+++.|++...+++++|++             ||+     
T Consensus       153 llykegqyEaAvqkFqaAlqvsGyqpllAYn-iALaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgN  231 (459)
T KOG4340|consen  153 LLYKEGQYEAAVQKFQAALQVSGYQPLLAYN-LALAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGN  231 (459)
T ss_pred             eeeccccHHHHHHHHHHHHhhcCCCchhHHH-HHHHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccc
Confidence            3446778888888888777653332455666 444556667888888888887776653             111     


Q ss_pred             ----------hHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc
Q 027412          133 ----------VSYSILIDGLCKRGLMEEALYAFHCALDN-HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD  201 (223)
Q Consensus       133 ----------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  201 (223)
                                ..+|.-...+.+.++++.|.+.+..|.-. ....|+.|...+.-. -..+++.+..+-+.-++..+. ..
T Consensus       232 t~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nP-fP  309 (459)
T KOG4340|consen  232 TLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNP-FP  309 (459)
T ss_pred             hHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCC-CC
Confidence                      12333344455777888887777766522 122355555554433 223445555555555554322 23


Q ss_pred             hhhHHHHhhhHhhcC
Q 027412          202 GLLLSTLADYNLQSS  216 (223)
Q Consensus       202 ~~~~~~l~~~~~~~~  216 (223)
                      ..|+..++-.||++.
T Consensus       310 ~ETFANlLllyCKNe  324 (459)
T KOG4340|consen  310 PETFANLLLLYCKNE  324 (459)
T ss_pred             hHHHHHHHHHHhhhH
Confidence            456666666666653

>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=3.4e-06  Score=50.44  Aligned_cols=70  Identities=17%  Similarity=0.262  Sum_probs=37.3

Q ss_pred             CCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcC--------CcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhc
Q 027412          146 GLMEEALYAFHCALDNHL-LPDVVTYAILIRGYCKAG--------RPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQS  215 (223)
Q Consensus       146 ~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--------~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  215 (223)
                      +++.....+|+.+++.|+ .|+..+|+.++.+..+..        +.-+.+.+|+.|+..+++|+..+|+.++..+++.
T Consensus        39 ~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~Llkg  117 (120)
T PF08579_consen   39 EDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSLLKG  117 (120)
T ss_pred             cchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHh
Confidence            444444444444444444 444444444444433321        1224556666677667777777777777666553

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 [, , ].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.52  E-value=1.3e-05  Score=57.60  Aligned_cols=83  Identities=14%  Similarity=0.148  Sum_probs=34.9

Q ss_pred             CchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCcc---HHHHHHHHHHHHhhCChhHHH
Q 027412           41 NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN---VVTYSCLIDGYFKSQNMKSAF  117 (223)
Q Consensus        41 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~  117 (223)
                      ++.+.|..+|+...+. +..+...|...++.+...++.+.|..+|++.... ..++   ...|...+..=.+.|+.+.+.
T Consensus        50 ~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~  127 (280)
T PF05843_consen   50 KDPKRARKIFERGLKK-FPSDPDFWLEYLDFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVR  127 (280)
T ss_dssp             S-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHH
T ss_pred             CCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHH
Confidence            3333455555544432 1223444444444444455555555555544433 1111   124444444444455555555


Q ss_pred             HHHHHHHH
Q 027412          118 DVYEEMCE  125 (223)
Q Consensus       118 ~~~~~~~~  125 (223)
                      .+.+.+.+
T Consensus       128 ~v~~R~~~  135 (280)
T PF05843_consen  128 KVEKRAEE  135 (280)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55444444

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.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.52  E-value=4.9e-06  Score=49.75  Aligned_cols=79  Identities=23%  Similarity=0.397  Sum_probs=60.3

Q ss_pred             HHHHHHHHhhCChhHHHHHHHHHHHCCC-CCChhHHHHHHHHHHhcC--------CHHHHHHHHHHHHhCCCCCCHHHHH
Q 027412          101 SCLIDGYFKSQNMKSAFDVYEEMCENNI-SPNIVSYSILIDGLCKRG--------LMEEALYAFHCALDNHLLPDVVTYA  171 (223)
Q Consensus       101 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~  171 (223)
                      ...+..+...+++.....+|+.+++.|+ -|+..+|+.++.+..++.        .+-..+.+|+.|+..+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            4455566666888888888888888888 788888888888877653        2345677888888888888888888


Q ss_pred             HHHHHHHh
Q 027412          172 ILIRGYCK  179 (223)
Q Consensus       172 ~l~~~~~~  179 (223)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            88877654

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 [, , ].

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.51  E-value=3.7e-05  Score=58.08  Aligned_cols=149  Identities=17%  Similarity=0.178  Sum_probs=101.3

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      .+.++++.|+..|.+.......|+         ...+....+++....+...-.++.. ..-...-...+.+.|++..|+
T Consensus       309 ~k~~~~~~ai~~~~kaLte~Rt~~---------~ls~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gdy~~Av  378 (539)
T KOG0548|consen  309 TKREDYEGAIKYYQKALTEHRTPD---------LLSKLKEAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGDYPEAV  378 (539)
T ss_pred             hhHHhHHHHHHHHHHHhhhhcCHH---------HHHHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccCHHHHH
Confidence            344555556666555443321211         1222333444444444443332221 112223366778899999999


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ..|.+++.++|. |...|.....+|.+.+.+..|+.--+..++.+ ++....|.--..++....++++|.+.|.+.++.+
T Consensus       379 ~~YteAIkr~P~-Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  379 KHYTEAIKRDPE-DARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             HHHHHHHhcCCc-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            999999999877 89999999999999999999999988888875 5555666666777777889999999999988876


Q ss_pred             C
Q 027412          163 L  163 (223)
Q Consensus       163 ~  163 (223)
                      +
T Consensus       457 p  457 (539)
T KOG0548|consen  457 P  457 (539)
T ss_pred             c
Confidence            3

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.51  E-value=2.7e-07  Score=43.71  Aligned_cols=31  Identities=39%  Similarity=0.763  Sum_probs=11.9

Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHHHCCCCC
Q 027412          100 YSCLIDGYFKSQNMKSAFDVYEEMCENNISP  130 (223)
Q Consensus       100 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  130 (223)
                      |+.++.+|++.|++++|.++|++|.+.|+.|
T Consensus         3 ~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p   33 (35)
T TIGR00756         3 YNTLIDGLCKAGRVEEALELFKEMLERGIEP   33 (35)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            3333333333333333333333333333333

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.50  E-value=1.4e-05  Score=64.60  Aligned_cols=185  Identities=14%  Similarity=0.103  Sum_probs=128.7

Q ss_pred             CHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHH
Q 027412            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFS   86 (223)
Q Consensus         7 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   86 (223)
                      +...|+..|-+..+..+. -...|..|...|....+...|...|.+..+.+.. +...+..+...|++..+++.|..+.-
T Consensus       473 ~~~~al~ali~alrld~~-~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l  550 (1238)
T KOG1127|consen  473 NSALALHALIRALRLDVS-LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICL  550 (1238)
T ss_pred             hHHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHH
Confidence            355666666666555322 2557888888888888888899999888877533 67778888888999999998888843


Q ss_pred             HHHhcCCC-ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 027412           87 KMLEKGPK-ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLP  165 (223)
Q Consensus        87 ~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  165 (223)
                      ..-+..+. .-...|....-.|...++...+...|+...+.+ |.|...|..++.+|...|++..|.++|.+.....+. 
T Consensus       551 ~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~-  628 (1238)
T KOG1127|consen  551 RAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPL-  628 (1238)
T ss_pred             HHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcH-
Confidence            33222211 112334445566778888888888888888875 678888999999999999999999999887765431 


Q ss_pred             CHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          166 DVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       166 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      +...---....-+..|.+.++...+.....
T Consensus       629 s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  629 SKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             hHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            222222223334567888888887776654

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.49  E-value=0.00027  Score=56.84  Aligned_cols=190  Identities=18%  Similarity=0.255  Sum_probs=110.0

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHH-HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDII-TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      ...+++..|+.....+.++.  |+.. +-..=.-...+.|+.++|..+++.....+.. |..|...+-.+|.+.++.++|
T Consensus        20 ld~~qfkkal~~~~kllkk~--Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~   96 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH--PNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEA   96 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHH
Confidence            34567788888888777663  3321 1111122355677888888777776655544 777777777788888888888


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhH----HHHHHHHH----------------------------------
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKS----AFDVYEEM----------------------------------  123 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~----------------------------------  123 (223)
                      ..+|++.....|  +......+..+|.+.+.+.+    |+++++..                                  
T Consensus        97 ~~~Ye~~~~~~P--~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~  174 (932)
T KOG2053|consen   97 VHLYERANQKYP--SEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLDPILLALAE  174 (932)
T ss_pred             HHHHHHHHhhCC--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCcccccchhHHHHH
Confidence            888888777543  45555666667776666544    33333321                                  


Q ss_pred             ------HHCC-CCCChhHHHHHHHHHHhcCCHHHHHHHHH-HHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          124 ------CENN-ISPNIVSYSILIDGLCKRGLMEEALYAFH-CALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       124 ------~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                            .+.+ -..+..-.......+...|++++|++++. ...+.-..-+...-+.-+..+...++|.+..++..++..
T Consensus       175 ~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~  254 (932)
T KOG2053|consen  175 KMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLE  254 (932)
T ss_pred             HHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHH
Confidence                  1111 00001111112223335667777777773 233333333444445556667777888888888888877


Q ss_pred             CC
Q 027412          196 NG  197 (223)
Q Consensus       196 ~~  197 (223)
                      .|
T Consensus       255 k~  256 (932)
T KOG2053|consen  255 KG  256 (932)
T ss_pred             hC
Confidence            64

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.49  E-value=3.9e-07  Score=42.90  Aligned_cols=32  Identities=25%  Similarity=0.369  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALDNHLLP  165 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  165 (223)
                      +|+.++.+|.+.|+++.|.++|+.|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            44555555555555555555555555444443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.47  E-value=8.2e-05  Score=57.98  Aligned_cols=140  Identities=13%  Similarity=0.046  Sum_probs=100.7

Q ss_pred             CCCcCHHHHHHHHHHHHhcC-----chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcC--------ChhHHHHHHHHH
Q 027412           22 GLEPDIITYNTIICGYCSLN-----RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG--------RMDDATMMFSKM   88 (223)
Q Consensus        22 ~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~   88 (223)
                      ..+.+...|...+++.....     +...|..+|++..+..+. ....+..+..++....        +...+.+...+.
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~-~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPD-FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            34567788988888755432     377999999999987433 4455555544443321        123344444443


Q ss_pred             Hhc-CCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 027412           89 LEK-GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL  164 (223)
Q Consensus        89 ~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  164 (223)
                      ... ....+...|..+.......|++++|...++++...+  |+...|..+...+...|+.++|.+.+++....++.
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~  485 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPG  485 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            332 122356778888777788899999999999999965  68889999999999999999999999999887654

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.46  E-value=5.6e-05  Score=54.54  Aligned_cols=186  Identities=15%  Similarity=0.117  Sum_probs=119.1

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhC----CCCC-cHHHHHHHHHHHHhcCChhHHHHHHHHHHhc---CCCcc--
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKP-NSITFTILIDAFCKEGRMDDATMMFSKMLEK---GPKAN--   96 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~--   96 (223)
                      ...|......|...|++++|.+.|.+..+.    +-.. -...|.....+|.+. ++++|++.+++....   .-.|+  
T Consensus        35 a~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~a  113 (282)
T PF14938_consen   35 ADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQA  113 (282)
T ss_dssp             HHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHH
T ss_pred             HHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            445777778888889999988888876432    2111 123455556666544 888999888877653   11222  


Q ss_pred             HHHHHHHHHHHHhh-CChhHHHHHHHHHHHC----CCCC--ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----
Q 027412           97 VVTYSCLIDGYFKS-QNMKSAFDVYEEMCEN----NISP--NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL-----  164 (223)
Q Consensus        97 ~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----  164 (223)
                      ...+..+...|... |++++|++.|++..+.    + .+  -...+..++..+.+.|++++|.++|++.......     
T Consensus       114 A~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~  192 (282)
T PF14938_consen  114 AKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLK  192 (282)
T ss_dssp             HHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTG
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccc
Confidence            34677788888888 9999999999988743    2 11  1345677888899999999999999988764321     


Q ss_pred             CCHH-HHHHHHHHHHhcCCcchHHHHHHHHHHC--CCCCc--hhhHHHHhhhHhh
Q 027412          165 PDVV-TYAILIRGYCKAGRPTEAMQLYDSMLRN--GIMPD--GLLLSTLADYNLQ  214 (223)
Q Consensus       165 ~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~p~--~~~~~~l~~~~~~  214 (223)
                      .+.. .+...+-++...||+..|...+++....  ++..+  ......|+.++-.
T Consensus       193 ~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~  247 (282)
T PF14938_consen  193 YSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE  247 (282)
T ss_dssp             HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh
Confidence            2222 3334455667789999999999998764  23222  3355566666643

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

Probab=98.46  E-value=5.7e-05  Score=58.46  Aligned_cols=178  Identities=10%  Similarity=0.005  Sum_probs=123.5

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHH
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF  108 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  108 (223)
                      .|..++.+ ...+++...+++.+.+.... +-...+....+-.+...|+.++|....+.-.+.++. +.+.|..+.-.+.
T Consensus        10 lF~~~lk~-yE~kQYkkgLK~~~~iL~k~-~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R   86 (700)
T KOG1156|consen   10 LFRRALKC-YETKQYKKGLKLIKQILKKF-PEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQR   86 (700)
T ss_pred             HHHHHHHH-HHHHHHHhHHHHHHHHHHhC-CccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHh
Confidence            34444443 35667777777777776532 223445555555556678888888888877776665 7778888888888


Q ss_pred             hhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHH
Q 027412          109 KSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQ  188 (223)
Q Consensus       109 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  188 (223)
                      ..+++++|+.+|..+...+ +.|...+.-+.-.-.+.|+++..........+..+ .....|..++.++.-.|++..|..
T Consensus        87 ~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~-~~ra~w~~~Avs~~L~g~y~~A~~  164 (700)
T KOG1156|consen   87 SDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRP-SQRASWIGFAVAQHLLGEYKMALE  164 (700)
T ss_pred             hhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888888888775 66777777777777777888877777777766543 245567777778888888888888


Q ss_pred             HHHHHHHCC-CCCchhhHHHHhhh
Q 027412          189 LYDSMLRNG-IMPDGLLLSTLADY  211 (223)
Q Consensus       189 ~~~~~~~~~-~~p~~~~~~~l~~~  211 (223)
                      ++++..+.. -.|+...+......
T Consensus       165 il~ef~~t~~~~~s~~~~e~se~~  188 (700)
T KOG1156|consen  165 ILEEFEKTQNTSPSKEDYEHSELL  188 (700)
T ss_pred             HHHHHHHhhccCCCHHHHHHHHHH
Confidence            888877653 24666666544443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.46  E-value=0.00015  Score=52.58  Aligned_cols=186  Identities=16%  Similarity=0.147  Sum_probs=113.9

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      ..+.++..|+.+++--...+-+-...+-.-+..++...|++++|...+..+.+.. .++...+..|.-++.-.|.+.+|.
T Consensus        33 ls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~  111 (557)
T KOG3785|consen   33 LSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAK  111 (557)
T ss_pred             HhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHH
Confidence            4566788888888765543322222333445667788899999999998887644 556666766777777778888887


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      .+-.+.    ++ ++..-..++....+.++-++-..+.+.+...     ..--.++......+-++.+|++++.+.+..+
T Consensus       112 ~~~~ka----~k-~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn  181 (557)
T KOG3785|consen  112 SIAEKA----PK-TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQDN  181 (557)
T ss_pred             HHHhhC----CC-ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            766543    22 4444455556666677766666665555431     2223344444444557788888888777644


Q ss_pred             CCCCHHHHHH-HHHHHHhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          163 LLPDVVTYAI-LIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       163 ~~~~~~~~~~-l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                        |+....|. +.-+|.+..-++-+.++++-.++.  .||+.
T Consensus       182 --~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q--~pdSt  219 (557)
T KOG3785|consen  182 --PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ--FPDST  219 (557)
T ss_pred             --hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh--CCCcH
Confidence              34444433 344556666666677777666653  44443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.44  E-value=0.00019  Score=54.69  Aligned_cols=186  Identities=14%  Similarity=0.170  Sum_probs=131.4

Q ss_pred             HHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC---chhHHHHHHHHHHhCC-CCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            8 LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN---RLDEAVQLFEKLTCVQ-LKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         8 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      -+++..++++....-..-+...|..+.+.--..-   ..+.....++++...- ..|+ -+|..+++.-.+..-++.|..
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~  387 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARK  387 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHH
Confidence            3556666666554322223334443333211111   2556667777765443 3333 357778888888888999999


Q ss_pred             HHHHHHhcCCCc-cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           84 MFSKMLEKGPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        84 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      +|.+.++.+..+ ++...++++.-++ .++.+-|.++|+--.+. ...++.-....+..+...|+-..+..+|++....+
T Consensus       388 iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~  465 (656)
T KOG1914|consen  388 IFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSV  465 (656)
T ss_pred             HHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhcc
Confidence            999999887766 6677777777666 57889999999987765 34556666788888999999999999999999874


Q ss_pred             CCC--CHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          163 LLP--DVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       163 ~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      ..|  ....|..++.-=..-|+...+.++-+++...
T Consensus       466 l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  466 LSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            443  4578999999999999999999888877654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.43  E-value=9.1e-05  Score=62.25  Aligned_cols=194  Identities=15%  Similarity=0.047  Sum_probs=114.8

Q ss_pred             ccccCHHHHHHHHHHHhhC----CCC-cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhC----CCC--C-cHHHHHHHHH
Q 027412            3 IKECHLDAALKLFGQLTDR----GLE-PDIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLK--P-NSITFTILID   70 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~   70 (223)
                      ...|++++|...+++....    |.. .....+..+...+...|+++.|...+++....    +..  + ....+..+..
T Consensus       502 ~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~  581 (903)
T PRK04841        502 HCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQ  581 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHH
Confidence            3568888888888877542    111 11234556667778889999988888776542    211  1 2233445566


Q ss_pred             HHHhcCChhHHHHHHHHHHhc----CCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC--CCCChhH----HHHHHH
Q 027412           71 AFCKEGRMDDATMMFSKMLEK----GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN--ISPNIVS----YSILID  140 (223)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~----~~~l~~  140 (223)
                      .+...|++++|...+.+....    +.......+..+...+...|++++|...++.+....  .......    ....+.
T Consensus       582 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~  661 (903)
T PRK04841        582 LLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLI  661 (903)
T ss_pred             HHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHH
Confidence            677779999998888776543    211123445556677788899998888888775421  0111000    011123


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          141 GLCKRGLMEEALYAFHCALDNHLLPD---VVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       141 ~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      .+...|+.+.|..++...........   ...+..+..++...|++++|...+.+....
T Consensus       662 ~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        662 YWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             HHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34456777777777665443211111   111345666777888888888888777653

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.42  E-value=0.0002  Score=60.25  Aligned_cols=192  Identities=11%  Similarity=0.038  Sum_probs=129.7

Q ss_pred             cccCHHHHHHHHHHHhhCCC------CcC--HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcH----HHHHHHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGL------EPD--IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS----ITFTILIDA   71 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~------~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~   71 (223)
                      ..|++++|...+....+.-.      .+.  ......+...+...|++++|...+++..+.....+.    ...+.+...
T Consensus       421 ~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~  500 (903)
T PRK04841        421 SQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEV  500 (903)
T ss_pred             HCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHH
Confidence            46788999888887654210      111  122233445667789999999999988753222221    345667777


Q ss_pred             HHhcCChhHHHHHHHHHHhc----CC-CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC----CCC--C-ChhHHHHHH
Q 027412           72 FCKEGRMDDATMMFSKMLEK----GP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN----NIS--P-NIVSYSILI  139 (223)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~  139 (223)
                      +...|++++|...+.+....    +. .....++..+...+...|++++|...+++....    +..  + ....+..+.
T Consensus       501 ~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la  580 (903)
T PRK04841        501 HHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRA  580 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHH
Confidence            88899999999999887653    11 112345566778889999999999998887642    211  1 223455566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          140 DGLCKRGLMEEALYAFHCALDN----HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       140 ~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      ..+...|++++|...+.+....    +.......+..+.......|++++|...+.+...
T Consensus       581 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~  640 (903)
T PRK04841        581 QLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLEN  640 (903)
T ss_pred             HHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7778889999999999887642    2111234555677788899999999999988854

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.41  E-value=6.1e-05  Score=53.18  Aligned_cols=111  Identities=19%  Similarity=0.173  Sum_probs=80.8

Q ss_pred             HHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC---ChhHHHHHHHHHHHC
Q 027412           50 FEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ---NMKSAFDVYEEMCEN  126 (223)
Q Consensus        50 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~  126 (223)
                      ++.-...+ +-|...|-.|...|...|+...|..-|.+..+..++ ++..+..+..++....   ...++..+|+++...
T Consensus       145 Le~~L~~n-P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~  222 (287)
T COG4235         145 LETHLQQN-PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQALAL  222 (287)
T ss_pred             HHHHHHhC-CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc
Confidence            33334344 337788888888888888888888888888877554 6777777766665443   345678888888877


Q ss_pred             CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412          127 NISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus       127 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      + +.|..+...+...+...|++.+|...|+.|++..+
T Consensus       223 D-~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~lp  258 (287)
T COG4235         223 D-PANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLLP  258 (287)
T ss_pred             C-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCC
Confidence            5 66777778888888888888888888888887654

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

Probab=98.40  E-value=0.00048  Score=53.73  Aligned_cols=194  Identities=16%  Similarity=0.191  Sum_probs=105.0

Q ss_pred             ccCHHHHHHHHHHHhhCCCCc------CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCc---HHHHHHHHHHHHhc
Q 027412            5 ECHLDAALKLFGQLTDRGLEP------DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN---SITFTILIDAFCKE   75 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~   75 (223)
                      .|+..+-+..|.++.+. +.|      ....|..+...|-+.|+++.|..+|++......+--   ..+|......=.+.
T Consensus       360 e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh  438 (835)
T KOG2047|consen  360 EGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRH  438 (835)
T ss_pred             cCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhh
Confidence            45566666666666543 111      133567777777778888888888887765543211   23455555555566


Q ss_pred             CChhHHHHHHHHHHhcCCC-----------------ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHH
Q 027412           76 GRMDDATMMFSKMLEKGPK-----------------ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSIL  138 (223)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~-----------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  138 (223)
                      .+++.|.+++++....-..                 .+...|..++..--..|-++....+++.+.+..+ .++......
T Consensus       439 ~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLri-aTPqii~Ny  517 (835)
T KOG2047|consen  439 ENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRI-ATPQIIINY  517 (835)
T ss_pred             hhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhc-CCHHHHHHH
Confidence            6777777776665432110                 0233455555555566666777777777765542 333444444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHh---cCCcchHHHHHHHHHHCCCCCc
Q 027412          139 IDGLCKRGLMEEALYAFHCALDNHLLPDV-VTYAILIRGYCK---AGRPTEAMQLYDSMLRNGIMPD  201 (223)
Q Consensus       139 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~p~  201 (223)
                      ...+-...-++++.++|++-...-..|+. ..|+..+.-+.+   ....+.|..+|++.++ |++|.
T Consensus       518 AmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~  583 (835)
T KOG2047|consen  518 AMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPE  583 (835)
T ss_pred             HHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHH
Confidence            44444555566666666554443222332 244444443332   2335566666666666 44444

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.40  E-value=7.1e-05  Score=51.93  Aligned_cols=141  Identities=11%  Similarity=0.019  Sum_probs=98.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChh-----HHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIV-----SYSIL  138 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~l  138 (223)
                      +.+.++.++...|.+.-...++.+.++.+++.++.....|++.-.+.||.+.|...|+...+..-..+..     +....
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            3455666666777888888888888888777788888888888888888888888888665432233333     33334


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHH
Q 027412          139 IDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLST  207 (223)
Q Consensus       139 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  207 (223)
                      ...|.-.+++..|...+.+....+. .++...|.-+-+..-.|+...|.+.++.|+..  .|...+-.+
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es  324 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHES  324 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhh
Confidence            4456666777788888877776655 36666666666677778888888888888874  555554443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.40  E-value=0.00064  Score=54.80  Aligned_cols=117  Identities=15%  Similarity=0.198  Sum_probs=89.8

Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHH--HHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhH
Q 027412           38 CSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDA--FCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKS  115 (223)
Q Consensus        38 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  115 (223)
                      ...+++.+|.....++.+.  .|+.. |...+.+  ..+.|+.++|..+++.....+.. |..|...+-.+|...++.++
T Consensus        20 ld~~qfkkal~~~~kllkk--~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKK--HPNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHH--CCCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            3467889999999888766  34433 3334444  45789999999999988777666 88999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412          116 AFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus       116 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      |..+|+.+...  -|+......+..+|.+.+++.+-.+.--++-+
T Consensus        96 ~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK  138 (932)
T KOG2053|consen   96 AVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK  138 (932)
T ss_pred             HHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999886  46688888888888888877765544444433

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.39  E-value=0.00016  Score=50.20  Aligned_cols=136  Identities=11%  Similarity=0.040  Sum_probs=109.2

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHH-----HH
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYS-----CL  103 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~l  103 (223)
                      +.+.++.++...|.+.-....+++.++...+.++.....|++.-.+.||.+.|...|++..+..-..+..+.+     ..
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            4456777777888999999999999988877788999999999999999999999999877654333433333     34


Q ss_pred             HHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 027412          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLP  165 (223)
Q Consensus       104 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  165 (223)
                      ...+.-.+++..|...+.++...+ +.|....|.-.-+..-.|+..+|.+.++.+....+.|
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~  319 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRH  319 (366)
T ss_pred             hhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence            445667788999999999988776 6677778888878888999999999999999876544

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.38  E-value=4.7e-06  Score=46.29  Aligned_cols=62  Identities=23%  Similarity=0.352  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC-ChhHHHHHHHHHHH
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ-NMKSAFDVYEEMCE  125 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~  125 (223)
                      .+|..+...+...|++++|+..|++..+.++. +...|..+..++...| ++++|+..+++.++
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            34444555555555555555555555554443 4445555555555555 45555555554443

...

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.37  E-value=2.7e-05  Score=63.08  Aligned_cols=184  Identities=14%  Similarity=0.079  Sum_probs=127.5

Q ss_pred             CHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC-CCcHHHHHHHHHHHHhcCChhHHHHHH
Q 027412            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-KPNSITFTILIDAFCKEGRMDDATMMF   85 (223)
Q Consensus         7 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~   85 (223)
                      +...|.+.|+...+.+ ..+..........|++..+++.|..+.-..-+... ..-...|....-.|.+.++...++.-|
T Consensus       507 Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~f  585 (1238)
T KOG1127|consen  507 DMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEF  585 (1238)
T ss_pred             HHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHH
Confidence            5667889999888775 33677889999999999999999998544433211 111233444666778889999999999


Q ss_pred             HHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC----
Q 027412           86 SKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN----  161 (223)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  161 (223)
                      +...+.+|. |...|..++.+|.+.|.+..|.+.|.++...+ |.+...-.-..-.-+..|.+.++...+......    
T Consensus       586 QsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr-P~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e  663 (1238)
T KOG1127|consen  586 QSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLLR-PLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLE  663 (1238)
T ss_pred             HHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhcC-cHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            999998887 99999999999999999999999999998753 333333333344466789999998888766532    


Q ss_pred             --CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          162 --HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       162 --~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                        +-..-..++-.+...+...|-..++..++++-
T Consensus       664 ~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eks  697 (1238)
T KOG1127|consen  664 RTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKS  697 (1238)
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHH
Confidence              11112234444444444445444444444443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.37  E-value=6.6e-05  Score=54.17  Aligned_cols=188  Identities=15%  Similarity=0.145  Sum_probs=114.8

Q ss_pred             ccccCHHHHHHHHHHHhhC----CCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHh----CCCCCc--HHHHHHHHHH
Q 027412            3 IKECHLDAALKLFGQLTDR----GLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTC----VQLKPN--SITFTILIDA   71 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~   71 (223)
                      ...|++++|.+.|.+....    +-+.+ ...|.....+|.+. ++++|+..+++..+    .| .|+  ...+..+...
T Consensus        46 k~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~  123 (282)
T PF14938_consen   46 KLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAAKCLKELAEI  123 (282)
T ss_dssp             HHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHHH
T ss_pred             HHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHH
Confidence            3456777777777765332    11111 33455555555444 88888888887654    23 233  3467788888


Q ss_pred             HHhc-CChhHHHHHHHHHHhc----CC-CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCC-----CCh-hHHHHHH
Q 027412           72 FCKE-GRMDDATMMFSKMLEK----GP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS-----PNI-VSYSILI  139 (223)
Q Consensus        72 ~~~~-~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~-~~~~~l~  139 (223)
                      |... |++++|.+.|++....    +. ..-...+..+...+.+.|++++|..+|++.......     .+. ..+...+
T Consensus       124 ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~  203 (282)
T PF14938_consen  124 YEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAI  203 (282)
T ss_dssp             HCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHH
Confidence            8888 8999999999887653    21 112346677888999999999999999998764322     122 1333445


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCC--CCCC--HHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          140 DGLCKRGLMEEALYAFHCALDNH--LLPD--VVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       140 ~~~~~~~~~~~a~~~~~~~~~~~--~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                      -++...||+..|.+.+++.....  +..+  ......|+.++ ..|+.+.......+.
T Consensus       204 l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~-~~~D~e~f~~av~~~  260 (282)
T PF14938_consen  204 LCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAY-EEGDVEAFTEAVAEY  260 (282)
T ss_dssp             HHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHH-HTT-CCCHHHHCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHH-HhCCHHHHHHHHHHH
Confidence            56777899999999999987653  3222  34556666664 446655544444443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.37  E-value=4e-06  Score=45.97  Aligned_cols=53  Identities=23%  Similarity=0.374  Sum_probs=22.2

Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHH
Q 027412           71 AFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (223)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  124 (223)
                      .+.+.|++++|...|+++++..+. +...+..+..++...|++++|...|+++.
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            333444444444444444444333 34444444444444444444444444443

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.35  E-value=3.8e-06  Score=46.66  Aligned_cols=63  Identities=27%  Similarity=0.288  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC-CHHHHHHHHHHHHh
Q 027412           97 VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG-LMEEALYAFHCALD  160 (223)
Q Consensus        97 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~  160 (223)
                      ..+|..+...+...|++++|+..|++..+.+ +.+...+..+..++...| ++++|++.+++.++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            4455666666666666666666666666554 445556666666666666 56666666665554

...

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

Probab=98.35  E-value=7.8e-05  Score=57.16  Aligned_cols=156  Identities=12%  Similarity=0.044  Sum_probs=112.6

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhh
Q 027412           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS  110 (223)
Q Consensus        31 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  110 (223)
                      -+=++.+...+++++|.....++...+ +.+...+..-+-+..+.+.+++|+.+.+.-...  ..+...+..-+.+..+.
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            344566778899999999999999776 446667777778888999999999666543221  11112223345666789


Q ss_pred             CChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--------------------------
Q 027412          111 QNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL--------------------------  164 (223)
Q Consensus       111 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------------------------  164 (223)
                      +..++|+..++-..    +.+..+...-.+.+.+.|++++|..+|+.+.+.+..                          
T Consensus        93 nk~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~  168 (652)
T KOG2376|consen   93 NKLDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVP  168 (652)
T ss_pred             ccHHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhcc
Confidence            99999999998322    334557777888999999999999999999765432                          


Q ss_pred             --C--CHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          165 --P--DVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       165 --~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                        |  +...+......++..|++.+|+++++..
T Consensus       169 ~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA  201 (652)
T KOG2376|consen  169 EVPEDSYELLYNTACILIENGKYNQAIELLEKA  201 (652)
T ss_pred             CCCcchHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence              1  1223334456678899999999999988

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.34  E-value=8.1e-05  Score=46.00  Aligned_cols=92  Identities=21%  Similarity=0.155  Sum_probs=45.6

Q ss_pred             HHHHHHhhCChhHHHHHHHHHHHCCCCCC--hhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHH
Q 027412          103 LIDGYFKSQNMKSAFDVYEEMCENNISPN--IVSYSILIDGLCKRGLMEEALYAFHCALDNHLL--PDVVTYAILIRGYC  178 (223)
Q Consensus       103 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~  178 (223)
                      +..++-..|+.++|+.+|++....|....  ...+-.+...+...|++++|..++++.....+.  .+......+..++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            34445555666666666666655543332  234444555555666666666666555543221  01122233334555


Q ss_pred             hcCCcchHHHHHHHHH
Q 027412          179 KAGRPTEAMQLYDSML  194 (223)
Q Consensus       179 ~~g~~~~a~~~~~~~~  194 (223)
                      ..|+.++|+..+-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            5566666665554443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.32  E-value=1e-05  Score=44.37  Aligned_cols=61  Identities=23%  Similarity=0.355  Sum_probs=46.7

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 027412           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK   94 (223)
Q Consensus        33 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   94 (223)
                      +...+.+.|++++|...|+++.+..+. +...+..+..++...|++++|...|+++.+..|.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~   63 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALELDPD   63 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            456677888888888888888877533 7777888888888888888888888888776543

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=98.30  E-value=3.2e-06  Score=46.80  Aligned_cols=53  Identities=23%  Similarity=0.283  Sum_probs=32.6

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV   56 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   56 (223)
                      .+.|++++|+++|+.+.+..+. +..++..++.+|.+.|++++|..+++++...
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3456666666666666655322 5556666666666666666666666666655

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.29  E-value=0.0002  Score=44.25  Aligned_cols=90  Identities=22%  Similarity=0.253  Sum_probs=40.9

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCc--HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCc--cHHHHHHHHHHHHh
Q 027412           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPN--SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKA--NVVTYSCLIDGYFK  109 (223)
Q Consensus        34 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~  109 (223)
                      ..++-..|+.++|+.+|++..+.|....  ...+-.+...+...|++++|..++++.....+.+  +......+..++..
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHH
Confidence            3444455555555555555555443322  2233444455555555555555555554432220  11111222334444


Q ss_pred             hCChhHHHHHHHHH
Q 027412          110 SQNMKSAFDVYEEM  123 (223)
Q Consensus       110 ~~~~~~a~~~~~~~  123 (223)
                      .|++++|+..+-..
T Consensus        88 ~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   88 LGRPKEALEWLLEA  101 (120)
T ss_pred             CCCHHHHHHHHHHH
Confidence            55555555554443

>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=98.28  E-value=2.9e-05  Score=52.32  Aligned_cols=49  Identities=16%  Similarity=0.268  Sum_probs=29.0

Q ss_pred             cHHHHHHHHHHHHhh-----CChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh
Q 027412           96 NVVTYSCLIDGYFKS-----QNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK  144 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  144 (223)
                      +-.+|..++..+.+.     |..+=....+..|.+.|+.-|..+|+.|++.+-+
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            555666666665532     4455555556666666666666666666666654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=98.26  E-value=5.6e-06  Score=45.83  Aligned_cols=48  Identities=25%  Similarity=0.396  Sum_probs=18.1

Q ss_pred             CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHH
Q 027412           76 GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (223)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  124 (223)
                      |++++|+++|+++....|. +...+..++.+|.+.|++++|..+++.+.
T Consensus         5 ~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    5 GDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             THHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             cCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3333444444443333333 33333333334444444444444443333

...

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.24  E-value=1.5e-06  Score=39.85  Aligned_cols=28  Identities=43%  Similarity=0.698  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      +|+.++++|++.|++++|.++|++|.+.
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~   29 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRER   29 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHC
Confidence            3444455555555555555555444443

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.

>PRK15331 chaperone protein SicA; Provisional

Probab=98.22  E-value=0.00039  Score=45.01  Aligned_cols=91  Identities=14%  Similarity=0.022  Sum_probs=69.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC
Q 027412           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL  147 (223)
Q Consensus        68 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  147 (223)
                      ...-+...|++++|..+|.-+...++. +..-|..|..++-..+++++|...|......+ ..|+..+-....++...|+
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCC
Confidence            334445678888888888888777665 66777778888888888888888888777654 4566667777888888888


Q ss_pred             HHHHHHHHHHHHh
Q 027412          148 MEEALYAFHCALD  160 (223)
Q Consensus       148 ~~~a~~~~~~~~~  160 (223)
                      .+.|...|....+
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            8888888887776

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=98.21  E-value=0.00045  Score=47.29  Aligned_cols=67  Identities=19%  Similarity=0.235  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC--CcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK--PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK   94 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   94 (223)
                      ..+-.....+...|++.+|...|+.+....+.  --....-.++.++.+.|+++.|...++++++..|.
T Consensus         6 ~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~   74 (203)
T PF13525_consen    6 EALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPN   74 (203)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC
Confidence            33444455566777888888888877654221  12344556777777788888888888887776554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=98.19  E-value=0.00038  Score=47.67  Aligned_cols=166  Identities=19%  Similarity=0.211  Sum_probs=92.8

Q ss_pred             cccccCHHHHHHHHHHHhhCCCC--cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHH--HHHHHHHHHHhc--
Q 027412            2 LIKECHLDAALKLFGQLTDRGLE--PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI--TFTILIDAFCKE--   75 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~--   75 (223)
                      +...|++.+|++.|+.+....+.  -...+.-.++.++.+.|+++.|...++++.+.-+.....  ++-.++.++...  
T Consensus        15 ~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~~~   94 (203)
T PF13525_consen   15 ALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQIP   94 (203)
T ss_dssp             HHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHhCc
Confidence            35689999999999999876322  235667788899999999999999999988764332222  222222222221  


Q ss_pred             ---------CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC
Q 027412           76 ---------GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG  146 (223)
Q Consensus        76 ---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  146 (223)
                               +...+|...|+.++               .-|=.+.-..+|...+..+.+.   . ...-..++..|.+.|
T Consensus        95 ~~~~~~~D~~~~~~A~~~~~~li---------------~~yP~S~y~~~A~~~l~~l~~~---l-a~~e~~ia~~Y~~~~  155 (203)
T PF13525_consen   95 GILRSDRDQTSTRKAIEEFEELI---------------KRYPNSEYAEEAKKRLAELRNR---L-AEHELYIARFYYKRG  155 (203)
T ss_dssp             HHH-TT---HHHHHHHHHHHHHH---------------HH-TTSTTHHHHHHHHHHHHHH---H-HHHHHHHHHHHHCTT
T ss_pred             cchhcccChHHHHHHHHHHHHHH---------------HHCcCchHHHHHHHHHHHHHHH---H-HHHHHHHHHHHHHcc
Confidence                     11223344444444               4443444444454444444321   0 111123566677888


Q ss_pred             CHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCcchH
Q 027412          147 LMEEALYAFHCALDNHLL--PDVVTYAILIRGYCKAGRPTEA  186 (223)
Q Consensus       147 ~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a  186 (223)
                      .+..|..-++.+++.-+.  ........++.++.+.|..+.+
T Consensus       156 ~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  156 KYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             -HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             cHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            888888888777764321  1123556677777777776643

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.19  E-value=0.00025  Score=58.07  Aligned_cols=185  Identities=15%  Similarity=0.147  Sum_probs=94.5

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      .++-+++|..+|++..     .+..+.+.|+.   .-++.++|.++-++..      .+..|..+..+-.+.|...+|++
T Consensus      1060 ~~~LyEEAF~ifkkf~-----~n~~A~~VLie---~i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAie 1125 (1666)
T KOG0985|consen 1060 ENQLYEEAFAIFKKFD-----MNVSAIQVLIE---NIGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIE 1125 (1666)
T ss_pred             hhhHHHHHHHHHHHhc-----ccHHHHHHHHH---HhhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHH
Confidence            3455677777776543     23334444443   2345555555544432      33456666666666666666665


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHH------
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHC------  157 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~------  157 (223)
                      -|-+.      -|+..|..++..+.+.|.|++-.+++...++..-.|.  +=+.++-+|++.++..+..+++.-      
T Consensus      1126 Syika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~--id~eLi~AyAkt~rl~elE~fi~gpN~A~i 1197 (1666)
T KOG0985|consen 1126 SYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY--IDSELIFAYAKTNRLTELEEFIAGPNVANI 1197 (1666)
T ss_pred             HHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc--chHHHHHHHHHhchHHHHHHHhcCCCchhH
Confidence            55332      1445566666666666666666666665555433333  224455555555555554443310      


Q ss_pred             ------HHhCC-------CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcC
Q 027412          158 ------ALDNH-------LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSS  216 (223)
Q Consensus       158 ------~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  216 (223)
                            .-+.+       .-.+...|..+...+...|+++.|...-++.      .+..||..+-.+|...+
T Consensus      1198 ~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~ 1263 (1666)
T KOG0985|consen 1198 QQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFACVDKE 1263 (1666)
T ss_pred             HHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHhchh
Confidence                  00000       0013344555666666666666665544332      34556666666665443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.19  E-value=3.1e-06  Score=38.77  Aligned_cols=29  Identities=48%  Similarity=0.922  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHCC
Q 027412          169 TYAILIRGYCKAGRPTEAMQLYDSMLRNG  197 (223)
Q Consensus       169 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  197 (223)
                      +|+.++.+|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            34555555555555555555555555443

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.

>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=98.16  E-value=0.00039  Score=44.88  Aligned_cols=57  Identities=16%  Similarity=0.276  Sum_probs=26.9

Q ss_pred             HHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412          101 SCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus       101 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      ..++..+...|++++|..+.+.+.... |.+...+..++.+|...|+...|.+.|+++
T Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   66 ERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            334444445555555555555555443 444445555555555555555555555444

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.14  E-value=0.0018  Score=49.64  Aligned_cols=167  Identities=16%  Similarity=0.222  Sum_probs=114.1

Q ss_pred             hhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhc---CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHH
Q 027412           43 LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE---GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDV  119 (223)
Q Consensus        43 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  119 (223)
                      .+++..+++...+.-...+..+|..+.+.--..   ...+.....++++...-..--..+|..++....+..-.+.|..+
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            345555665554332222333343332221111   12556666777766543222345788899999999999999999


Q ss_pred             HHHHHHCCCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCC
Q 027412          120 YEEMCENNISP-NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGI  198 (223)
Q Consensus       120 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  198 (223)
                      |.++.+.+..+ ++.+.++++..|+. ++..-|.++|+--++.-. -++.-....+.-+...|+-..+..+|++.+..++
T Consensus       389 F~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf~-d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l  466 (656)
T KOG1914|consen  389 FKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKFG-DSPEYVLKYLDFLSHLNDDNNARALFERVLTSVL  466 (656)
T ss_pred             HHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhcC-CChHHHHHHHHHHHHhCcchhHHHHHHHHHhccC
Confidence            99999887666 67778888887775 588999999998665432 3455557788888999999999999999999877


Q ss_pred             CCch--hhHHHHhhh
Q 027412          199 MPDG--LLLSTLADY  211 (223)
Q Consensus       199 ~p~~--~~~~~l~~~  211 (223)
                      .|+.  ..|..+++.
T Consensus       467 ~~~ks~~Iw~r~l~y  481 (656)
T KOG1914|consen  467 SADKSKEIWDRMLEY  481 (656)
T ss_pred             ChhhhHHHHHHHHHH
Confidence            7664  567776654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=98.14  E-value=0.0002  Score=50.83  Aligned_cols=87  Identities=11%  Similarity=0.099  Sum_probs=46.0

Q ss_pred             HhhCChhHHHHHHHHHHHCCCCCC---hhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCC
Q 027412          108 FKSQNMKSAFDVYEEMCENNISPN---IVSYSILIDGLCKRGLMEEALYAFHCALDNHLL--PDVVTYAILIRGYCKAGR  182 (223)
Q Consensus       108 ~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~  182 (223)
                      .+.|++++|...|+.+.+.. |-+   ..++..+..+|...|++++|...|+.+.+..+.  .....+..+..++...|+
T Consensus       154 ~~~~~y~~Ai~af~~fl~~y-P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~  232 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKY-PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGD  232 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCC
Confidence            44456666666666665542 111   235555566666666666666666665543221  123344444555556666


Q ss_pred             cchHHHHHHHHHH
Q 027412          183 PTEAMQLYDSMLR  195 (223)
Q Consensus       183 ~~~a~~~~~~~~~  195 (223)
                      +++|..+|+++++
T Consensus       233 ~~~A~~~~~~vi~  245 (263)
T PRK10803        233 TAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666666655

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.13  E-value=0.00075  Score=44.57  Aligned_cols=127  Identities=20%  Similarity=0.184  Sum_probs=71.2

Q ss_pred             CCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC-CCChhHHHH
Q 027412           59 KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI-SPNIVSYSI  137 (223)
Q Consensus        59 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~  137 (223)
                      -|+..--..|..+..+.|+..+|...|.+...--.--|......+..+....+++..|...++.+.+.+. ..++.+...
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            4455555556666666677777776666665543334555566666666666666666666666665420 012234455


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHH
Q 027412          138 LIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAM  187 (223)
Q Consensus       138 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  187 (223)
                      +.+.+...|.+.+|...|+...+.-  |+...-......+.+.|+.+++.
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~y--pg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISYY--PGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHhC--CCHHHHHHHHHHHHHhcchhHHH
Confidence            5666666666666666666666543  33333333344445555544443

>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=98.11  E-value=8e-05  Score=50.23  Aligned_cols=105  Identities=15%  Similarity=0.242  Sum_probs=70.5

Q ss_pred             CcCHHHHHHHHHHHHhc-----CchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHH
Q 027412           24 EPDIITYNTIICGYCSL-----NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVV   98 (223)
Q Consensus        24 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   98 (223)
                      ..+..+|..++..|.+.     |..+=....+..|.+.|+.-|..+|+.|++.+-+ |.+- -..+|+.+          
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~----------  111 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAE----------  111 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHH----------
Confidence            34667777777777654     5566666677777777877788888888777654 3322 11111111          


Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL  147 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  147 (223)
                           ..-  .-.+-+-|++++++|...|+-||..++..+++.+.+.+.
T Consensus       112 -----F~h--yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  112 -----FMH--YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             -----hcc--CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                 111  123456788999999999999999999999999887765

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

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

Probab=98.10  E-value=0.0026  Score=49.89  Aligned_cols=207  Identities=14%  Similarity=0.145  Sum_probs=131.0

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcC---HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC----------C-------c
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPD---IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK----------P-------N   61 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------~-------~   61 (223)
                      |-..|+++.|..+|++..+-..+.-   ..+|..-...=.+..+++.|+++.+.....--.          |       +
T Consensus       397 Ye~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrS  476 (835)
T KOG2047|consen  397 YENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRS  476 (835)
T ss_pred             HHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHh
Confidence            4467999999999999887643321   345666666666778899999988877532111          1       2


Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC-hhHHHHHHH
Q 027412           62 SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN-IVSYSILID  140 (223)
Q Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~  140 (223)
                      ...|...++.--..|-++....+++++....+- ++..--.....+-...-++++.+++++-+..=-.|+ ...|+..+.
T Consensus       477 lkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLt  555 (835)
T KOG2047|consen  477 LKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLT  555 (835)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHH
Confidence            335566666666678889999999999887554 444444455555666778888888887665422333 346666665


Q ss_pred             HHHh---cCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCch--hhHHHHhhh
Q 027412          141 GLCK---RGLMEEALYAFHCALDNHLLPDVV--TYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDG--LLLSTLADY  211 (223)
Q Consensus       141 ~~~~---~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~~  211 (223)
                      -+.+   ...++.|..+|++.++ +.+|...  .|......=-+.|-...|+.++++... ++++..  ..|+..|.-
T Consensus       556 kfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~-~v~~a~~l~myni~I~k  631 (835)
T KOG2047|consen  556 KFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS-AVKEAQRLDMYNIYIKK  631 (835)
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHH
Confidence            5554   2478899999999988 5534322  222222223345777788888887654 344432  355555443

>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=98.09  E-value=0.00077  Score=43.51  Aligned_cols=72  Identities=21%  Similarity=0.321  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHH-----HCCCCCChhHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC-----ENNISPNIVSYS  136 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~~  136 (223)
                      +...++..+...|++++|..+.+.+...+|- +...|..+|.++...|+...|.+.|+.+.     +.|+.|+..+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            4456667777899999999999999999876 89999999999999999999999999875     348888876644

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK15331 chaperone protein SicA; Provisional

Probab=98.08  E-value=0.00073  Score=43.79  Aligned_cols=92  Identities=10%  Similarity=-0.010  Sum_probs=77.7

Q ss_pred             HHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 027412          103 LIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR  182 (223)
Q Consensus       103 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  182 (223)
                      ...-+...|++++|..+|.-+...+ +.+..-+..|..++...+++++|...|......+. -|+..+-....++...|+
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCC
Confidence            4555678899999999999998776 66788889999999999999999999998776554 355556678899999999


Q ss_pred             cchHHHHHHHHHHC
Q 027412          183 PTEAMQLYDSMLRN  196 (223)
Q Consensus       183 ~~~a~~~~~~~~~~  196 (223)
                      .+.|...|....+.
T Consensus       121 ~~~A~~~f~~a~~~  134 (165)
T PRK15331        121 AAKARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999999883

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.05  E-value=4.8e-05  Score=42.67  Aligned_cols=55  Identities=24%  Similarity=0.250  Sum_probs=26.9

Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      .|.+.+++++|..+++.+...+ |.+...+.....++.+.|++++|.+.++...+.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            3444455555555555555443 334444444555555555555555555554443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=98.05  E-value=0.0024  Score=47.41  Aligned_cols=168  Identities=17%  Similarity=0.119  Sum_probs=112.7

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCC---CCCcHHHHHHHHHHHHh---cCChhHHHHHHHHHHhcCCCccHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQ---LKPNSITFTILIDAFCK---EGRMDDATMMFSKMLEKGPKANVVTY  100 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~  100 (223)
                      ..+...++-+|....+++..+++++.+....   +.-+...-.....++.+   .|+.++|++++..+......+++.+|
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            4455566667999999999999999997652   11133334445566667   89999999999997666667789999


Q ss_pred             HHHHHHHHhh---------CChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC-HH---HHHHHH---HH-HHhCC-
Q 027412          101 SCLIDGYFKS---------QNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL-ME---EALYAF---HC-ALDNH-  162 (223)
Q Consensus       101 ~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~---~a~~~~---~~-~~~~~-  162 (223)
                      ..+.+.|-..         ...++|...|.+.-+.  .|+...=-+++..+...|. .+   +..++-   .. ..+.| 
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~  298 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGS  298 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcc
Confidence            9888887532         2366788888877664  3544332223333333332 22   222222   11 11222 


Q ss_pred             --CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          163 --LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       163 --~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                        ...+...+.+++.++.-.|++++|.+..++|.+.
T Consensus       299 ~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  299 LEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence              3357778889999999999999999999999986

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=98.03  E-value=0.00041  Score=49.28  Aligned_cols=99  Identities=13%  Similarity=0.113  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCcc--HHHHHHHHHHHHhhCChhHHHHHHHHHHHCC--CCCChhHHHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN--VVTYSCLIDGYFKSQNMKSAFDVYEEMCENN--ISPNIVSYSILI  139 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~  139 (223)
                      .|......+.+.|++++|...|+.+.+..|...  ...+..+..+|...|++++|...|+.+.+.-  -+.....+..++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            344444444556788888888888877665421  3456667777888888888888888877541  112244555566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCC
Q 027412          140 DGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus       140 ~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      .++...|+.++|.+.|+...+..
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC
Confidence            67777888888888888777654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.01  E-value=8.6e-05  Score=41.64  Aligned_cols=56  Identities=14%  Similarity=0.208  Sum_probs=35.4

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           70 DAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      ..|.+.+++++|.++++.+...+|. ++..|.....++...|++++|...|+...+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            3455666666666666666666555 5566666666666666666666666666654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.99  E-value=0.00086  Score=54.06  Aligned_cols=140  Identities=19%  Similarity=0.200  Sum_probs=68.0

Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHH----------HhcCC---------CccH
Q 027412           37 YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKM----------LEKGP---------KANV   97 (223)
Q Consensus        37 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----------~~~~~---------~~~~   97 (223)
                      |-..|.|++|.++-+.--+..   -..||..-..-+-..++.+.|++.|++.          +...|         ..+.
T Consensus       836 yQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~  912 (1416)
T KOG3617|consen  836 YQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDE  912 (1416)
T ss_pred             HHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccch
Confidence            444555666655544322111   1234444444455556666666665532          11111         0122


Q ss_pred             HHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 027412           98 VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGY  177 (223)
Q Consensus        98 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  177 (223)
                      ..|.--..-.-..|+.+.|+.+|..+..         |..+++..+-+|+.++|-++-++-      .|......+.+.|
T Consensus       913 ~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~Y  977 (1416)
T KOG3617|consen  913 SLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMY  977 (1416)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHh
Confidence            2333333333445555555555544432         233334444444444444443321      2555666677778


Q ss_pred             HhcCCcchHHHHHHHHH
Q 027412          178 CKAGRPTEAMQLYDSML  194 (223)
Q Consensus       178 ~~~g~~~~a~~~~~~~~  194 (223)
                      -..|++.+|...|.+..
T Consensus       978 En~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  978 ENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             hhhHHHHHHHHHHHHHH
Confidence            88888888877776654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.96  E-value=0.00065  Score=54.71  Aligned_cols=175  Identities=17%  Similarity=0.116  Sum_probs=106.2

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCC---------CCCcHHHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ---------LKPNSITFTILIDAF   72 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~~~~~~~~l~~~~   72 (223)
                      |...|+.+.|.+-++-+.      +..+|..+.+.|.+..+++-|.-.+-.|....         ..|+ .+-....-..
T Consensus       738 yvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLA  810 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLA  810 (1416)
T ss_pred             EEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHH
Confidence            455688888877776655      45689999999999888887766555543210         1121 1111222333


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHH
Q 027412           73 CKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEAL  152 (223)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  152 (223)
                      .+.|.+++|+.+|++-.+         |..|=+.|-..|.+++|.++-+.--+..   -..||......+-..++.+.|+
T Consensus       811 ieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~Al  878 (1416)
T KOG3617|consen  811 IELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAAL  878 (1416)
T ss_pred             HHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHH
Confidence            466788888888876543         2334455666777887777765433322   2346666666666677777777


Q ss_pred             HHHHHHH----------hCCC---------CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          153 YAFHCAL----------DNHL---------LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       153 ~~~~~~~----------~~~~---------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      +.|++.-          ...+         ..+...|......+-..|+.+.|+.+|....+
T Consensus       879 eyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D  940 (1416)
T KOG3617|consen  879 EYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD  940 (1416)
T ss_pred             HHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh
Confidence            7776432          1111         12445566666666677777777777766553

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.92  E-value=0.00039  Score=55.33  Aligned_cols=104  Identities=20%  Similarity=0.310  Sum_probs=64.3

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      ....|.+|+.+++.+..+.  .-..-|..+.+-|+..|+++.|.++|-+.-         .++-.+.+|.+.|+|+.|.+
T Consensus       744 ~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~k  812 (1636)
T KOG3616|consen  744 GAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFK  812 (1636)
T ss_pred             hhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHH
Confidence            3456777777777766652  223346667777777777777777775431         24456677777888887777


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHH
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY  120 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  120 (223)
                      +-.+..  |+......|..-..-.-..|++.+|.+++
T Consensus       813 la~e~~--~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  813 LAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            765442  34444555555555555666666655554

>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=97.83  E-value=0.00015  Score=41.26  Aligned_cols=60  Identities=22%  Similarity=0.429  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhc----CCC-cc-HHHHHHHHHHHHhhCChhHHHHHHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEK----GPK-AN-VVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~  123 (223)
                      +++.+...|...|++++|+..|++..+.    |.. |+ ..++..+..++...|++++|++.+++.
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444444444444444444443321    110 11 233444444444444444444444443

...

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.79  E-value=0.0081  Score=46.69  Aligned_cols=162  Identities=15%  Similarity=0.118  Sum_probs=107.6

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCcH------HHHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCccHHHHH
Q 027412           32 TIICGYCSLNRLDEAVQLFEKLTCVQLKPNS------ITFTILIDAFCK----EGRMDDATMMFSKMLEKGPKANVVTYS  101 (223)
Q Consensus        32 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  101 (223)
                      .++....=.|+-+.+++.+.+..+.+--..+      -.|+..+..++.    ..+.+.|.++++.+.++-|+ +....-
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~yP~-s~lfl~  271 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRYPN-SALFLF  271 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhCCC-cHHHHH
Confidence            3334445578889999999887654311121      234444444443    34678899999999987654 333334


Q ss_pred             HHHHHHHhhCChhHHHHHHHHHHHCC---CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHH
Q 027412          102 CLIDGYFKSQNMKSAFDVYEEMCENN---ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILI-RGY  177 (223)
Q Consensus       102 ~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~  177 (223)
                      .-.+.+...|+.++|++.|+......   -+.....+--+...+.-.++|++|.+.|..+.+..- .+...|..+. .++
T Consensus       272 ~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~-WSka~Y~Y~~a~c~  350 (468)
T PF10300_consen  272 FEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESK-WSKAFYAYLAAACL  350 (468)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccc-cHHHHHHHHHHHHH
Confidence            45678888999999999999766321   122334556677778889999999999999987543 3445554443 335


Q ss_pred             HhcCCc-------chHHHHHHHHHH
Q 027412          178 CKAGRP-------TEAMQLYDSMLR  195 (223)
Q Consensus       178 ~~~g~~-------~~a~~~~~~~~~  195 (223)
                      ...|+.       ++|.++|.+...
T Consensus       351 ~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  351 LMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HhhccchhhhhhHHHHHHHHHHHHH
Confidence            567777       888888887653

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>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=97.78  E-value=0.00015  Score=41.23  Aligned_cols=62  Identities=26%  Similarity=0.274  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHhhCChhHHHHHHHHHHHC----CC-CCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           98 VTYSCLIDGYFKSQNMKSAFDVYEEMCEN----NI-SPN-IVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        98 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      .+++.+...|...|++++|+..|++..+.    |- .|+ ..++..+..++...|++++|++.+++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45566666666666666666666665532    10 011 3355556666666666666666665543

...

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.77  E-value=0.0023  Score=51.21  Aligned_cols=75  Identities=21%  Similarity=0.255  Sum_probs=32.7

Q ss_pred             HHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchH
Q 027412          107 YFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEA  186 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  186 (223)
                      ....++|.+|+.+++.+....  .-...|..+...|...|+++.|.++|-+.         ..++-.+..|.+.|+|+.|
T Consensus       742 ai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da  810 (1636)
T KOG3616|consen  742 AIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDA  810 (1636)
T ss_pred             HhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHH
Confidence            334444555555555444332  12223444444555555555555544321         1223334444455555555


Q ss_pred             HHHHHH
Q 027412          187 MQLYDS  192 (223)
Q Consensus       187 ~~~~~~  192 (223)
                      .++-++
T Consensus       811 ~kla~e  816 (1636)
T KOG3616|consen  811 FKLAEE  816 (1636)
T ss_pred             HHHHHH
Confidence            444443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.73  E-value=0.0017  Score=48.00  Aligned_cols=125  Identities=14%  Similarity=0.063  Sum_probs=76.2

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhC-----CCCC---------cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHH
Q 027412           34 ICGYCSLNRLDEAVQLFEKLTCV-----QLKP---------NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVT   99 (223)
Q Consensus        34 ~~~~~~~~~~~~a~~~~~~~~~~-----~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   99 (223)
                      ...+.+.|++..|..-|++....     +.++         -..++..+..++.+.+++..|++..++.+..++. |.-.
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~-N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPN-NVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCC-chhH
Confidence            34677778888888777775432     1111         1234566677777777777777777777776654 6666


Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHH-HHHHHHHHHHh
Q 027412          100 YSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLME-EALYAFHCALD  160 (223)
Q Consensus       100 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~  160 (223)
                      ..--..++...|+++.|+..|+++.+.. |.|..+-+.++..-.+..... ...++|..|..
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~~-P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKLE-PSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            5556777777777777777777777653 444444455554444433333 33556666653

>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=97.72  E-value=0.0017  Score=40.60  Aligned_cols=83  Identities=10%  Similarity=-0.016  Sum_probs=47.5

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC---------------CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN---------------ISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      |..++..++.++++.|+.+....+++..-..+               ..|+..++.+++.+|+..|++..|+++++...+
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            35677888888888888888888887665332               124444555555555555555555555554432


Q ss_pred             -CCCCCCHHHHHHHHHHHH
Q 027412          161 -NHLLPDVVTYAILIRGYC  178 (223)
Q Consensus       161 -~~~~~~~~~~~~l~~~~~  178 (223)
                       .+++.+..+|..|++-+.
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHH
Confidence             233334445555544433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.69  E-value=0.0048  Score=51.11  Aligned_cols=100  Identities=15%  Similarity=0.188  Sum_probs=62.0

Q ss_pred             cCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHH
Q 027412            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMF   85 (223)
Q Consensus         6 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   85 (223)
                      +++++|.+.-++.-      .+..|..+..+-.+.|...+|++-|-+.      .|+..|..+++...+.|.|++-.+++
T Consensus      1089 ~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL 1156 (1666)
T KOG0985|consen 1089 GSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYL 1156 (1666)
T ss_pred             hhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHH
Confidence            45556655544432      3456777777777777777777666543      25566777777777777777777777


Q ss_pred             HHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHH
Q 027412           86 SKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDV  119 (223)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  119 (223)
                      .-.++...+|...  +.|+-+|++.++..+..++
T Consensus      1157 ~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~f 1188 (1666)
T KOG0985|consen 1157 LMARKKVREPYID--SELIFAYAKTNRLTELEEF 1188 (1666)
T ss_pred             HHHHHhhcCccch--HHHHHHHHHhchHHHHHHH
Confidence            6555554444333  4466667766666554443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.69  E-value=0.0023  Score=47.35  Aligned_cols=128  Identities=19%  Similarity=0.153  Sum_probs=97.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhc-----CCC---------ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCCh
Q 027412           67 ILIDAFCKEGRMDDATMMFSKMLEK-----GPK---------ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI  132 (223)
Q Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~---------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  132 (223)
                      .-.+.|.+.|++..|...|++....     +.+         .-..+++.+..++.+.+++.+|+..-.+.+..+ ++|+
T Consensus       213 e~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~  291 (397)
T KOG0543|consen  213 ERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNV  291 (397)
T ss_pred             HhhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCch
Confidence            3455678889999998888875442     111         123467889999999999999999999999887 8888


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcch-HHHHHHHHHHC
Q 027412          133 VSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTE-AMQLYDSMLRN  196 (223)
Q Consensus       133 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~  196 (223)
                      -.+.--..++...|+++.|+..|+++.+..+ .|...-+.++.+-.+..++.+ ..++|..|...
T Consensus       292 KALyRrG~A~l~~~e~~~A~~df~ka~k~~P-~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  292 KALYRRGQALLALGEYDLARDDFQKALKLEP-SNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             hHHHHHHHHHHhhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            9999999999999999999999999998765 355555666665555554443 46777777653

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.68  E-value=0.0079  Score=41.98  Aligned_cols=174  Identities=21%  Similarity=0.223  Sum_probs=117.8

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC--CCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL--KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (223)
                      ...|+.. ..-.+.|++++|.+.|+.+....+  +-...+.-.++.++.+.+++++|+..+++..+..|......|...+
T Consensus        35 ~~LY~~g-~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Yl  113 (254)
T COG4105          35 SELYNEG-LTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYL  113 (254)
T ss_pred             HHHHHHH-HHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHH
Confidence            3344444 446678999999999999986531  2234566677788889999999999999999987765555566666


Q ss_pred             HHHHhh-------CChhH---HHHHHHHHHHC----CCCCChhHH------------HHHHHHHHhcCCHHHHHHHHHHH
Q 027412          105 DGYFKS-------QNMKS---AFDVYEEMCEN----NISPNIVSY------------SILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus       105 ~~~~~~-------~~~~~---a~~~~~~~~~~----~~~~~~~~~------------~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      .+.+..       .|...   |..-|++++..    ...+|...-            ..+.+.|.+.|.+..|..-++.+
T Consensus       114 kgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v  193 (254)
T COG4105         114 KGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEV  193 (254)
T ss_pred             HHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            665532       23333   44445555543    111222211            34567889999999999999999


Q ss_pred             HhCCC--CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          159 LDNHL--LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       159 ~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                      .+.-.  ......+-.+..+|...|-.++|...-.-+...  .|+..
T Consensus       194 ~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N--~p~s~  238 (254)
T COG4105         194 LENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN--YPDSQ  238 (254)
T ss_pred             HhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc--CCCCc
Confidence            98621  112346677888899999999998887766653  45543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.67  E-value=0.0018  Score=48.91  Aligned_cols=65  Identities=20%  Similarity=0.132  Sum_probs=38.4

Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccH---HHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANV---VTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        61 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      +...++.+..+|...|++++|+..|++.++.++. +.   .+|..+..+|...|+.++|+..++++.+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd-~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPN-PDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3445666666666666666666666666665444 22   23555666666666666666666666553

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.67  E-value=0.0036  Score=47.37  Aligned_cols=99  Identities=11%  Similarity=0.081  Sum_probs=69.4

Q ss_pred             cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcH--HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHH
Q 027412           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS--ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSC  102 (223)
Q Consensus        25 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  102 (223)
                      .+...++.+..+|...|++++|+..|++..+.++....  .+|..+..+|...|+.++|+..+++.++.+ .   ..|..
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n---~~f~~  148 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-N---LKFST  148 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-c---hhHHH
Confidence            35778999999999999999999999999887543221  458889999999999999999999998752 1   12221


Q ss_pred             HHH--HHHhhCChhHHHHHHHHHHHCC
Q 027412          103 LID--GYFKSQNMKSAFDVYEEMCENN  127 (223)
Q Consensus       103 l~~--~~~~~~~~~~a~~~~~~~~~~~  127 (223)
                      +..  .+....+..+..++++.+.+-|
T Consensus       149 i~~DpdL~plR~~pef~eLlee~rk~G  175 (453)
T PLN03098        149 ILNDPDLAPFRASPEFKELQEEARKGG  175 (453)
T ss_pred             HHhCcchhhhcccHHHHHHHHHHHHhC
Confidence            111  1112233345666666666655

>PRK11906 transcriptional regulator; Provisional

Probab=97.62  E-value=0.016  Score=44.04  Aligned_cols=163  Identities=13%  Similarity=0.080  Sum_probs=111.6

Q ss_pred             HHH--HHHHHHHHhcC-----chhHHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHh---------cCChhHHHHHHHHHH
Q 027412           28 ITY--NTIICGYCSLN-----RLDEAVQLFEKLTCV-QLKPN-SITFTILIDAFCK---------EGRMDDATMMFSKML   89 (223)
Q Consensus        28 ~~~--~~l~~~~~~~~-----~~~~a~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~   89 (223)
                      ..|  ...+++.....     ..+.|..+|.+.... ...|+ ...|..+..++..         ..+..+|.++-++..
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            456  55555544422     356788899998822 12443 4455555444433         233557778888888


Q ss_pred             hcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HH
Q 027412           90 EKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPD-VV  168 (223)
Q Consensus        90 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~  168 (223)
                      +.++. |......+..+....++++.+...|++....+ |....+|........-.|+.++|.+.+++..+..+..- ..
T Consensus       332 eld~~-Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~  409 (458)
T PRK11906        332 DITTV-DGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAV  409 (458)
T ss_pred             hcCCC-CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHH
Confidence            88876 88888888888899999999999999999875 55667788888888889999999999999877653221 22


Q ss_pred             HHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          169 TYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       169 ~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                      .....+..|+..+ .+.|++++-+-
T Consensus       410 ~~~~~~~~~~~~~-~~~~~~~~~~~  433 (458)
T PRK11906        410 VIKECVDMYVPNP-LKNNIKLYYKE  433 (458)
T ss_pred             HHHHHHHHHcCCc-hhhhHHHHhhc
Confidence            2333344566544 67777776543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.60  E-value=0.0056  Score=44.42  Aligned_cols=152  Identities=12%  Similarity=-0.047  Sum_probs=97.2

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhC-C--CCCcHHHHHHHHHHHHhcCChhH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-Q--LKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~--~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      .+|++.+|-..++++.+. .|.|..++..-=+++.-.|+.+.....++++... +  .+-.+.+-....-++...|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            356677777777777765 3456667777777777788887777777777543 1  11122333344455567788888


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC---CCCChhHHHHHHHHHHhcCCHHHHHHHHHH
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN---ISPNIVSYSILIDGLCKRGLMEEALYAFHC  157 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  157 (223)
                      |++.-++..+.+.. |...-..+...+-..++.+++.++..+-...-   .-.-...|-...-.+...+.++.|+++|++
T Consensus       194 AEk~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            88888888777655 66777777777777888888887776544321   011122333444455666788888888775

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.58  E-value=0.0044  Score=39.30  Aligned_cols=60  Identities=13%  Similarity=0.193  Sum_probs=36.9

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCc--cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC
Q 027412           68 LIDAFCKEGRMDDATMMFSKMLEKGPKA--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (223)
Q Consensus        68 l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  127 (223)
                      -.....+.|++++|.+.|+.+..+-|..  ...+-..++.+|.+.+++++|...++..++..
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            4444456677777777777776653321  23344556667777777777777777776653

>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=97.57  E-value=0.0047  Score=38.65  Aligned_cols=84  Identities=10%  Similarity=0.074  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHhcC---------------CCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           62 SITFTILIDAFCKEGRMDDATMMFSKMLEKG---------------PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      ..++..++.++++.|+.+....+++..-..+               ..|+..+..+++.+|+..+++..|+++++...+.
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~   81 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRK   81 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            4455666666666666666666665542211               2355666666666666666666666666665532


Q ss_pred             -CCCCChhHHHHHHHHHHhc
Q 027412          127 -NISPNIVSYSILIDGLCKR  145 (223)
Q Consensus       127 -~~~~~~~~~~~l~~~~~~~  145 (223)
                       +++.+..+|..|+.-....
T Consensus        82 Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   82 YPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             cCCCCCHHHHHHHHHHHHHh
Confidence             4555556666666554433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.56  E-value=0.0095  Score=39.59  Aligned_cols=127  Identities=15%  Similarity=0.121  Sum_probs=63.4

Q ss_pred             cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC-ccHHHHHHH
Q 027412           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK-ANVVTYSCL  103 (223)
Q Consensus        25 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l  103 (223)
                      |+......|.....+.|+..+|...|++...--+-.|....-.+.++....+++..|...++.+.+.++. .++.+...+
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~  166 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLF  166 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHH
Confidence            4444445555555555666666655555553333344555555555555555555555555555543221 122233344


Q ss_pred             HHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHH
Q 027412          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALY  153 (223)
Q Consensus       104 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  153 (223)
                      .+.+...|.+..|...|+.....  -|+..........+.++|+.+++..
T Consensus       167 aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHH
Confidence            55555555555555555555542  3444444444444455554444433

>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=97.55  E-value=0.015  Score=41.94  Aligned_cols=164  Identities=13%  Similarity=0.132  Sum_probs=103.4

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHH-------HHHHhcC-chhHHHHHHHHHHhC--------CCCCcH----
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTII-------CGYCSLN-RLDEAVQLFEKLTCV--------QLKPNS----   62 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~-------~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~~----   62 (223)
                      .+.|+++.|..++.+........++.....+.       ....+.+ +++.|..++++..+.        ...|+.    
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            46899999999999987643122222222232       3333455 888888887776443        122332    


Q ss_pred             -HHHHHHHHHHHhcCCh---hHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHH
Q 027412           63 -ITFTILIDAFCKEGRM---DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSIL  138 (223)
Q Consensus        63 -~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  138 (223)
                       .+...++.+|...+..   ++|.++++.+....+. .+..+..-+..+.+.++.+.+.+.+..|...- ......+..+
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~  161 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSI  161 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHH
Confidence             4677788888887764   4566677777665554 45666667777778899999999999999762 3244555555


Q ss_pred             HHHHHh--cCCHHHHHHHHHHHHhCCCCCCHH
Q 027412          139 IDGLCK--RGLMEEALYAFHCALDNHLLPDVV  168 (223)
Q Consensus       139 ~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~  168 (223)
                      +..+..  ......+...+..+....+.|+..
T Consensus       162 l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~  193 (278)
T PF08631_consen  162 LHHIKQLAEKSPELAAFCLDYLLLNRFKSSED  193 (278)
T ss_pred             HHHHHHHHhhCcHHHHHHHHHHHHHHhCCChh
Confidence            555522  233456777777766555545543

It is also involved in sporulation [].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.55  E-value=0.0097  Score=43.71  Aligned_cols=108  Identities=16%  Similarity=0.119  Sum_probs=79.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK  144 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  144 (223)
                      .+..+.-+...|+...|.++-.+.    --|+...|-..+.+++..++|++...+-..      .-++.-|..++.+|.+
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~F----kv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~  249 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEF----KVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLK  249 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHc----CCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHH
Confidence            344455666778888888887666    236888999999999999999987776432      2245788899999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHH
Q 027412          145 RGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDS  192 (223)
Q Consensus       145 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  192 (223)
                      .|...+|..++.++      ++    ..-+..|.+.|++.+|.+...+
T Consensus       250 ~~~~~eA~~yI~k~------~~----~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  250 YGNKKEASKYIPKI------PD----EERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             CCCHHHHHHHHHhC------Ch----HHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999888662      22    4456677888888888766433

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.48  E-value=0.01  Score=43.12  Aligned_cols=154  Identities=13%  Similarity=0.022  Sum_probs=109.2

Q ss_pred             hcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc-CC--CccHHHHHHHHHHHHhhCChhH
Q 027412           39 SLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK-GP--KANVVTYSCLIDGYFKSQNMKS  115 (223)
Q Consensus        39 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~--~~~~~~~~~l~~~~~~~~~~~~  115 (223)
                      ..|++.+|-..++++.+.- +.|...+..-=++|.-.|+.+.....++++... +.  +-....-..+.-++...|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d~-PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDY-PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHhC-chhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            3566777777777777553 447777777778888889988888888888765 22  1122333445556678899999


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCCcchHHHHHHH
Q 027412          116 AFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH---LLPDVVTYAILIRGYCKAGRPTEAMQLYDS  192 (223)
Q Consensus       116 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  192 (223)
                      |.+.-++..+.+ +.|.-...++...+.-.|+..++.+++.+-...-   ...-...|-...-.+...+.++.|+++|++
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            999999998876 6777778888888888999999998887654321   111123344455567788999999999975


Q ss_pred             HH
Q 027412          193 ML  194 (223)
Q Consensus       193 ~~  194 (223)
                      -+
T Consensus       273 ei  274 (491)
T KOG2610|consen  273 EI  274 (491)
T ss_pred             HH
Confidence            44

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.41  E-value=0.011  Score=44.11  Aligned_cols=161  Identities=16%  Similarity=0.090  Sum_probs=105.2

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCcc-----------HHHHHH
Q 027412           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN-----------VVTYSC  102 (223)
Q Consensus        34 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------~~~~~~  102 (223)
                      ..++...|+.++|.+.--...+.+.. +......=..++.-.++.+.+...|++.++.+|...           ...+..
T Consensus       176 a~cl~~~~~~~~a~~ea~~ilkld~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~  254 (486)
T KOG0550|consen  176 AECLAFLGDYDEAQSEAIDILKLDAT-NAEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKE  254 (486)
T ss_pred             hhhhhhcccchhHHHHHHHHHhcccc-hhHHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHh
Confidence            35666778888888887777765422 333333333344456778888888888877655321           112333


Q ss_pred             HHHHHHhhCChhHHHHHHHHHHHCC---CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 027412          103 LIDGYFKSQNMKSAFDVYEEMCENN---ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCK  179 (223)
Q Consensus       103 l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  179 (223)
                      -..-..+.|.+..|.+.|.+.+..+   +.++...|.....+..+.|+..+|+.-.+...+.+. .-...+..-..++.-
T Consensus       255 ~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~-syikall~ra~c~l~  333 (486)
T KOG0550|consen  255 RGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDS-SYIKALLRRANCHLA  333 (486)
T ss_pred             hhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCH-HHHHHHHHHHHHHHH
Confidence            3344567788888888888887642   344556677777778888888888888877776432 122344444556677


Q ss_pred             cCCcchHHHHHHHHHHC
Q 027412          180 AGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       180 ~g~~~~a~~~~~~~~~~  196 (223)
                      .++|++|.+-+++..+.
T Consensus       334 le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  334 LEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            78888888888888775

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.41  E-value=0.00063  Score=33.85  Aligned_cols=36  Identities=19%  Similarity=0.399  Sum_probs=17.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHH
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYS  101 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  101 (223)
                      +..+...|.+.|++++|+++|++.++..|. |...+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P~-~~~a~~   39 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALALDPD-DPEAWR   39 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-CHHHHH
Confidence            344445555555555555555555554443 444443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.36  E-value=0.0018  Score=48.17  Aligned_cols=49  Identities=22%  Similarity=0.308  Sum_probs=37.7

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcC----HHHHHHHHHHHHhcCchhHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPD----IITYNTIICGYCSLNRLDEAVQLFE   51 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~   51 (223)
                      +++.|+...-+.+|+..++.|-. |    ..+|..|..+|.-.+++++|+++..
T Consensus        27 Lck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~   79 (639)
T KOG1130|consen   27 LCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHT   79 (639)
T ss_pred             HHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhh
Confidence            57889999999999999988744 3    3456677777777888888887654

>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=97.33  E-value=0.034  Score=42.87  Aligned_cols=152  Identities=14%  Similarity=0.077  Sum_probs=93.7

Q ss_pred             ccCHHHHHHHHH--HHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            5 ECHLDAALKLFG--QLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         5 ~g~~~~A~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      +|+++.+.+...  ++..   ..+....+.++..+-+.|-.+.|+.+..         |+.+   -.....+.|+++.|.
T Consensus       274 ~~d~~~v~~~i~~~~ll~---~i~~~~~~~i~~fL~~~G~~e~AL~~~~---------D~~~---rFeLAl~lg~L~~A~  338 (443)
T PF04053_consen  274 RGDFEEVLRMIAASNLLP---NIPKDQGQSIARFLEKKGYPELALQFVT---------DPDH---RFELALQLGNLDIAL  338 (443)
T ss_dssp             TT-HHH-----HHHHTGG---G--HHHHHHHHHHHHHTT-HHHHHHHSS----------HHH---HHHHHHHCT-HHHHH
T ss_pred             cCChhhhhhhhhhhhhcc---cCChhHHHHHHHHHHHCCCHHHHHhhcC---------ChHH---HhHHHHhcCCHHHHH
Confidence            355666555554  1221   1124456777777778888888776643         2221   234455678888887


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ++.++.      .+...|..|...+.+.|+++-|...|++..         -+..|+-.|.-.|+.+...++.+.....|
T Consensus       339 ~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  339 EIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            765442      367799999999999999999999998754         24566677888888888888887776654


Q ss_pred             CCCCHHHHHHHHHHHHhcCCcchHHHHHHH
Q 027412          163 LLPDVVTYAILIRGYCKAGRPTEAMQLYDS  192 (223)
Q Consensus       163 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  192 (223)
                      -      ++....++.-.|+.++..+++.+
T Consensus       404 ~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  404 D------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             -------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             C------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            2      44555566667888877776654

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.33  E-value=0.0095  Score=41.91  Aligned_cols=100  Identities=18%  Similarity=0.248  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHHCCCCC---ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHH
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENNISP---NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL--PDVVTYAIL  173 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l  173 (223)
                      .|+.-+. +.+.|++..|...|...++.. |.   ....+..|..++...|+++.|...|..+.+.-+.  .-+.++--+
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~Y-P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKY-PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcC-CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            4665444 456678999999999998763 32   3457788999999999999999999998865332  235677888


Q ss_pred             HHHHHhcCCcchHHHHHHHHHHCCCCCch
Q 027412          174 IRGYCKAGRPTEAMQLYDSMLRNGIMPDG  202 (223)
Q Consensus       174 ~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  202 (223)
                      ..+..+.|+.++|..+|+++.+.  -|+.
T Consensus       222 g~~~~~l~~~d~A~atl~qv~k~--YP~t  248 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQVIKR--YPGT  248 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHH--CCCC
Confidence            88899999999999999999986  4543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.32  E-value=0.026  Score=39.24  Aligned_cols=185  Identities=15%  Similarity=0.124  Sum_probs=108.8

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcC------HHHHHHHHHHHHhcCchhHHHHHHHHHH----hCCCCCcHHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPD------IITYNTIICGYCSLNRLDEAVQLFEKLT----CVQLKPNSITFTILIDA   71 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~   71 (223)
                      |...+++++|...+.+..+- .+.+      ..+|...+...-....+.++..++++..    +.| .|++.... |-.+
T Consensus        41 fRnAk~feKakdcLlkA~~~-yEnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~G-spdtAAma-leKA  117 (308)
T KOG1585|consen   41 FRNAKKFEKAKDCLLKASKG-YENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECG-SPDTAAMA-LEKA  117 (308)
T ss_pred             HHhhccHHHHHHHHHHHHHH-HHhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhC-CcchHHHH-HHHH
Confidence            44566777777777666531 1111      2234455555555667777777777753    234 44544321 2121


Q ss_pred             --HHhcCChhHHHHHHHHHHhc---CC--CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC-----CCCCChhHHHHHH
Q 027412           72 --FCKEGRMDDATMMFSKMLEK---GP--KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN-----NISPNIVSYSILI  139 (223)
Q Consensus        72 --~~~~~~~~~a~~~~~~~~~~---~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~  139 (223)
                        ..+.-++++|++++.+....   +-  +.-...+....+.+.+...+++|-..+.+-...     ....--..+-..|
T Consensus       118 ak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~i  197 (308)
T KOG1585|consen  118 AKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAI  197 (308)
T ss_pred             HHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHH
Confidence              23456788888888776543   11  112345666777788888888877666554321     1111123456666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCCcchHHHHH
Q 027412          140 DGLCKRGLMEEALYAFHCALDNH---LLPDVVTYAILIRGYCKAGRPTEAMQLY  190 (223)
Q Consensus       140 ~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~  190 (223)
                      ..+.-..++..|.+.++...+.+   -..+..+...|+.+|- .|+.+++..++
T Consensus       198 lv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD~E~~~kvl  250 (308)
T KOG1585|consen  198 LVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDIEEIKKVL  250 (308)
T ss_pred             HHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cCCHHHHHHHH
Confidence            67777889999999998754332   1235667888888764 47777766554

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.29  E-value=0.0049  Score=43.66  Aligned_cols=31  Identities=23%  Similarity=0.326  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHCCCCCchhhHHHHhhhHhhcC
Q 027412          186 AMQLYDSMLRNGIMPDGLLLSTLADYNLQSS  216 (223)
Q Consensus       186 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  216 (223)
                      ++.++++|...|+.||..+-..|+.++.+.+
T Consensus       142 ~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~  172 (406)
T KOG3941|consen  142 AIKVLEQMEWHGVMPDKEIEDILVNAFGRWN  172 (406)
T ss_pred             HHHHHHHHHHcCCCCchHHHHHHHHHhcccc
Confidence            5667777777777777777777777665543

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.29  E-value=0.043  Score=41.13  Aligned_cols=173  Identities=14%  Similarity=0.001  Sum_probs=109.8

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHH-------------HHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-------------TFTIL   68 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------------~~~~l   68 (223)
                      +.-.|++++|.+.-....+... .+......=..++.-.++.+.+...|++.+..+  |+..             .+..=
T Consensus       179 l~~~~~~~~a~~ea~~ilkld~-~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~  255 (486)
T KOG0550|consen  179 LAFLGDYDEAQSEAIDILKLDA-TNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKER  255 (486)
T ss_pred             hhhcccchhHHHHHHHHHhccc-chhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhh
Confidence            3445677777777766665531 122222222234445678889999999887664  3322             22223


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCC---CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc
Q 027412           69 IDAFCKEGRMDDATMMFSKMLEKGP---KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR  145 (223)
Q Consensus        69 ~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  145 (223)
                      ..-..+.|.+..|.+.+.+.+..+|   .++...|.....+..+.|+.++|+.--++..+.+ +.-...+..-..++...
T Consensus       256 gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD-~syikall~ra~c~l~l  334 (486)
T KOG0550|consen  256 GNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID-SSYIKALLRRANCHLAL  334 (486)
T ss_pred             hhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC-HHHHHHHHHHHHHHHHH
Confidence            3445678999999999999887654   4556677778888889999999999888887653 11223344445566678


Q ss_pred             CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHH
Q 027412          146 GLMEEALYAFHCALDNHLLP-DVVTYAILIRGYC  178 (223)
Q Consensus       146 ~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~  178 (223)
                      ++|++|.+-++...+..-.+ ...++.....++-
T Consensus       335 e~~e~AV~d~~~a~q~~~s~e~r~~l~~A~~aLk  368 (486)
T KOG0550|consen  335 EKWEEAVEDYEKAMQLEKDCEIRRTLREAQLALK  368 (486)
T ss_pred             HHHHHHHHHHHHHHhhccccchHHHHHHHHHHHH
Confidence            89999999998887654322 2334444433433

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.29  E-value=0.043  Score=41.05  Aligned_cols=159  Identities=13%  Similarity=0.060  Sum_probs=102.3

Q ss_pred             cccccCHHHHHHHHHHHhhCC---CCcCHHHHHHHHHHHHh---cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh-
Q 027412            2 LIKECHLDAALKLFGQLTDRG---LEPDIITYNTIICGYCS---LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK-   74 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-   74 (223)
                      |....+++..+++++.+....   +.-...+-...+-++.+   .|+.++|.+++..+......+++.++..++..|-. 
T Consensus       151 yRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD~  230 (374)
T PF13281_consen  151 YRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRIYKDL  230 (374)
T ss_pred             hhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHH
Confidence            556678999999999987651   22233444455566777   89999999999996666667889999988888743 


Q ss_pred             --------cCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCC-hh---HHHHHH---HH-HHHCCC---CCChhHH
Q 027412           75 --------EGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN-MK---SAFDVY---EE-MCENNI---SPNIVSY  135 (223)
Q Consensus        75 --------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~---~a~~~~---~~-~~~~~~---~~~~~~~  135 (223)
                              ....++|...|.+.-+..  |+...=-.++..+...|. .+   +..++-   .. +.+.|.   ..+-..+
T Consensus       231 ~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYWd~  308 (374)
T PF13281_consen  231 FLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYWDV  308 (374)
T ss_pred             HHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccccHHHH
Confidence                    223677888887776543  333221222222222332 21   222222   11 112332   2344566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412          136 SILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus       136 ~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ..++.+..-.|+.++|.+..++|.+..
T Consensus       309 ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  309 ATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            788999999999999999999998764

>PRK11906 transcriptional regulator; Provisional

Probab=97.27  E-value=0.051  Score=41.51  Aligned_cols=146  Identities=11%  Similarity=0.107  Sum_probs=105.2

Q ss_pred             CHHHHHHHHHHHhhC-CCCcC-HHHHHHHHHHHHh---------cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhc
Q 027412            7 HLDAALKLFGQLTDR-GLEPD-IITYNTIICGYCS---------LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE   75 (223)
Q Consensus         7 ~~~~A~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   75 (223)
                      ..+.|+.+|.+.... ...|+ ...|..+..++..         ..+..+|.++.++..+.+.. |+.+...+..+....
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~-Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTV-DGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHhh
Confidence            456788999998821 22444 4455555544433         23456788888888888744 888888888888888


Q ss_pred             CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCCh---hHHHHHHHHHHhcCCHHHHH
Q 027412           76 GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI---VSYSILIDGLCKRGLMEEAL  152 (223)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~  152 (223)
                      ++++.|...|++....+|. ...+|........-.|+.++|.+.+++..+.  .|..   ......+..|+.. ..+.|+
T Consensus       352 ~~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~~~~~~~~~~~~~~~-~~~~~~  427 (458)
T PRK11906        352 GQAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRKAVVIKECVDMYVPN-PLKNNI  427 (458)
T ss_pred             cchhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhHHHHHHHHHHHHcCC-chhhhH
Confidence            9999999999999998876 6778887888888899999999999998775  3432   2333344466655 467777


Q ss_pred             HHHHH
Q 027412          153 YAFHC  157 (223)
Q Consensus       153 ~~~~~  157 (223)
                      +++-+
T Consensus       428 ~~~~~  432 (458)
T PRK11906        428 KLYYK  432 (458)
T ss_pred             HHHhh
Confidence            77754

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=97.21  E-value=0.034  Score=38.22  Aligned_cols=89  Identities=22%  Similarity=0.170  Sum_probs=37.1

Q ss_pred             HHHhcCChhHHHHHHHHHHhcCC--CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCC-ChhHHHHHHHHHHhcCC
Q 027412           71 AFCKEGRMDDATMMFSKMLEKGP--KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP-NIVSYSILIDGLCKRGL  147 (223)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  147 (223)
                      .+...|+++.+...+.+.....+  ......+......+...++++.+...+....... +. ....+..+...+...++
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHccc
Confidence            34444555555555544433211  0122222222233344444555555554444432 22 23444444444444444


Q ss_pred             HHHHHHHHHHHHh
Q 027412          148 MEEALYAFHCALD  160 (223)
Q Consensus       148 ~~~a~~~~~~~~~  160 (223)
                      ++.+...+.....
T Consensus       218 ~~~a~~~~~~~~~  230 (291)
T COG0457         218 YEEALEYYEKALE  230 (291)
T ss_pred             HHHHHHHHHHHHh
Confidence            5555555444443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=97.16  E-value=0.047  Score=39.06  Aligned_cols=155  Identities=14%  Similarity=0.125  Sum_probs=103.5

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCC
Q 027412           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN  112 (223)
Q Consensus        33 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  112 (223)
                      -.......|++.+|..+|....+.... +...--.+..+|...|+.+.|..++..+-.............-+..+.+...
T Consensus       140 ~~~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~  218 (304)
T COG3118         140 EAKELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAA  218 (304)
T ss_pred             HhhhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhc
Confidence            334567788899999999888876544 4555666888899999999999998876543322222333334555555555


Q ss_pred             hhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCcchHHHHH
Q 027412          113 MKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN--HLLPDVVTYAILIRGYCKAGRPTEAMQLY  190 (223)
Q Consensus       113 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  190 (223)
                      ..+...+-...-..  +-|...-..+...+...|+.+.|.+.+-.+++.  +. -|...-..++..+.-.|.-+.+...+
T Consensus       219 ~~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~-~d~~~Rk~lle~f~~~g~~Dp~~~~~  295 (304)
T COG3118         219 TPEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGF-EDGEARKTLLELFEAFGPADPLVLAY  295 (304)
T ss_pred             CCCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc-cCcHHHHHHHHHHHhcCCCCHHHHHH
Confidence            55555555555442  557778888888888999999998877776644  33 35566677777777777555444433


Q ss_pred             H
Q 027412          191 D  191 (223)
Q Consensus       191 ~  191 (223)
                      +
T Consensus       296 R  296 (304)
T COG3118         296 R  296 (304)
T ss_pred             H
Confidence            3

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.14  E-value=0.045  Score=38.37  Aligned_cols=157  Identities=15%  Similarity=0.194  Sum_probs=106.4

Q ss_pred             ccccCHHHHHHHHHHHhhCCC--CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh------
Q 027412            3 IKECHLDAALKLFGQLTDRGL--EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK------   74 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~------   74 (223)
                      .+.|++++|.+.|+.+..+.+  +-...+.-.++-++.+.++++.|+..+++.....+......|-.-|.+.+.      
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~  124 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDD  124 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCc
Confidence            467999999999999987632  223556677788889999999999999999876533333334334444332      


Q ss_pred             -cCCh---hHHHHHHHHHHhcCCC----ccHHH-----------H-HHHHHHHHhhCChhHHHHHHHHHHHCCCCCC---
Q 027412           75 -EGRM---DDATMMFSKMLEKGPK----ANVVT-----------Y-SCLIDGYFKSQNMKSAFDVYEEMCENNISPN---  131 (223)
Q Consensus        75 -~~~~---~~a~~~~~~~~~~~~~----~~~~~-----------~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---  131 (223)
                       ..|.   ..|..-|+.++++-|.    ||...           + ..+.+.|.+.|.+..|..-++.+.+. .+-+   
T Consensus       125 ~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~  203 (254)
T COG4105         125 VTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLEN-YPDTSAV  203 (254)
T ss_pred             cccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhc-cccccch
Confidence             2233   3455555566655332    12111           1 23567788999999999999999986 3333   


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412          132 IVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus       132 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      ...+-.+..+|...|-.++|.+.-.-+..
T Consensus       204 ~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         204 REALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            34566777889999999998887665544

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.08  E-value=0.0031  Score=31.34  Aligned_cols=27  Identities=11%  Similarity=0.060  Sum_probs=13.0

Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412          100 YSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus       100 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      +..+...|...|++++|.++|+++.+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344444444555555555555544443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.08  E-value=0.021  Score=40.21  Aligned_cols=99  Identities=16%  Similarity=0.166  Sum_probs=78.3

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC--CcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC--ccHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK--PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK--ANVVTYSC  102 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~  102 (223)
                      ...|+.-+. +.+.|++..|...|....+..+.  -....+..|+.++...|++++|..+|..+.+..++  .-+..+.-
T Consensus       142 ~~~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         142 TKLYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             hHHHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            446777666 55678899999999999876422  12345666999999999999999999999886443  13467778


Q ss_pred             HHHHHHhhCChhHHHHHHHHHHHC
Q 027412          103 LIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus       103 l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      |..+..+.|+.++|...|+++.+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            889999999999999999999876

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=97.06  E-value=0.03  Score=34.98  Aligned_cols=94  Identities=16%  Similarity=0.073  Sum_probs=71.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChh---HHHHHHHHHHhc
Q 027412           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIV---SYSILIDGLCKR  145 (223)
Q Consensus        69 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~  145 (223)
                      .-+....|+.+.|++.|.+.+..-|+ ....||.-..++.-.|+.++|++-+++..+..-+.+..   .|-.-...|...
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l~P~-raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            34566788999999999988887666 78889999999999999999999888887653222322   344445567788


Q ss_pred             CCHHHHHHHHHHHHhCCC
Q 027412          146 GLMEEALYAFHCALDNHL  163 (223)
Q Consensus       146 ~~~~~a~~~~~~~~~~~~  163 (223)
                      |+.+.|..-|+...+.|.
T Consensus       129 g~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLGS  146 (175)
T ss_pred             CchHHHHHhHHHHHHhCC
Confidence            899999988888877764

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.06  E-value=0.078  Score=40.42  Aligned_cols=143  Identities=15%  Similarity=0.224  Sum_probs=102.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcC-CCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKG-PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      +|...++.-.+..-.+.|..+|-+..+.+ ..+++..+++++..++ .|++.-|..+|+--... .+.+....+-.+..+
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-f~d~~~y~~kyl~fL  476 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-FPDSTLYKEKYLLFL  476 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-CCCchHHHHHHHHHH
Confidence            56667777777777889999999998887 5667788888887665 57889999999877664 233344446677778


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhh
Q 027412          143 CKRGLMEEALYAFHCALDNHLLP--DVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADY  211 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  211 (223)
                      ...++-+.|..+|+..... +..  -...|..++..=..-|+...+..+-+++.+  +.|...+.......
T Consensus       477 i~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~Sr  544 (660)
T COG5107         477 IRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSR  544 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHH
Confidence            8889999999999865532 111  246788888888888888888887777776  35555444444333

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=97.06  E-value=0.034  Score=35.54  Aligned_cols=43  Identities=21%  Similarity=0.220  Sum_probs=21.0

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhc
Q 027412           32 TIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE   75 (223)
Q Consensus        32 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   75 (223)
                      .++..+.+.+.......+++.+...+. .+....+.++..|++.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~   54 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHH
Confidence            344444444555555555555554432 3444555555555543

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=97.04  E-value=0.031  Score=34.89  Aligned_cols=93  Identities=15%  Similarity=0.090  Sum_probs=74.2

Q ss_pred             HHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH---HHHHHHHHHHhc
Q 027412          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVV---TYAILIRGYCKA  180 (223)
Q Consensus       104 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~  180 (223)
                      ..+....|+.+.|++.|.+.+.. .|.....||.-.+++.-.|+.++|+.-+++..+..-..+..   .|..-...|...
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            45677899999999999999886 36788999999999999999999999999988753222322   344444557888


Q ss_pred             CCcchHHHHHHHHHHCC
Q 027412          181 GRPTEAMQLYDSMLRNG  197 (223)
Q Consensus       181 g~~~~a~~~~~~~~~~~  197 (223)
                      |+-+.|..-|+..-+.|
T Consensus       129 g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLG  145 (175)
T ss_pred             CchHHHHHhHHHHHHhC
Confidence            99999999998877765

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=97.02  E-value=0.018  Score=41.18  Aligned_cols=77  Identities=19%  Similarity=0.292  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH-----CCCCCchhhHHHH
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR-----NGIMPDGLLLSTL  208 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~p~~~~~~~l  208 (223)
                      ++..++..+...|+++.+.+.++++....+ -+...|..++.+|...|+...|+..|+.+.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp-~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDP-YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            456667777777888888888888877766 4777788888888888888888888777664     3777777766666


Q ss_pred             hhh
Q 027412          209 ADY  211 (223)
Q Consensus       209 ~~~  211 (223)
                      .+.
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            555

>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=96.86  E-value=0.037  Score=37.03  Aligned_cols=97  Identities=13%  Similarity=0.024  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCc--cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCC---CChhHHHH
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKA--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS---PNIVSYSI  137 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~  137 (223)
                      ..+..+...|.+.|+.+.|.+.|.++......+  -...+..+++.....+++..+...+.++...--.   ++...--.
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            456778888888888888888888887764433  2345666778888888888888887776643111   11111111


Q ss_pred             H--HHHHHhcCCHHHHHHHHHHHH
Q 027412          138 L--IDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       138 l--~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      .  .-.+...+++..|-+.|-...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence            1  112334677777777776554

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.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.84  E-value=0.024  Score=40.36  Aligned_cols=87  Identities=17%  Similarity=0.255  Sum_probs=45.9

Q ss_pred             CcHHHHHHHHHHHHh-----cCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC----------------ChhHHHH
Q 027412           60 PNSITFTILIDAFCK-----EGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ----------------NMKSAFD  118 (223)
Q Consensus        60 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a~~  118 (223)
                      .|..+|-..+..+..     .+..+-....++.|.+-|+..|..+|+.|+..+-+..                +-+-++.
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~  144 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIK  144 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHH
Confidence            355555555555543     2445555555666666677667777777766654322                1122444


Q ss_pred             HHHHHHHCCCCCChhHHHHHHHHHHhcC
Q 027412          119 VYEEMCENNISPNIVSYSILIDGLCKRG  146 (223)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~  146 (223)
                      ++++|...|+.||..+-..+++++.+.+
T Consensus       145 vLeqME~hGVmPdkE~e~~lvn~FGr~~  172 (406)
T KOG3941|consen  145 VLEQMEWHGVMPDKEIEDILVNAFGRWN  172 (406)
T ss_pred             HHHHHHHcCCCCchHHHHHHHHHhcccc
Confidence            4555555555555555555555544444

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.83  E-value=0.056  Score=34.44  Aligned_cols=86  Identities=15%  Similarity=0.155  Sum_probs=63.5

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC--CCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL--KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (223)
                      ...+-.-.....+.|++++|.+.|+.+...-+  +-...+.-.|+.+|.+.+++++|...+++.++.+|......|...+
T Consensus        10 ~~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~   89 (142)
T PF13512_consen   10 PQELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYM   89 (142)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            34444445556788999999999999986632  2234566778999999999999999999999988775556666666


Q ss_pred             HHHHhhCC
Q 027412          105 DGYFKSQN  112 (223)
Q Consensus       105 ~~~~~~~~  112 (223)
                      .++....+
T Consensus        90 ~gL~~~~~   97 (142)
T PF13512_consen   90 RGLSYYEQ   97 (142)
T ss_pred             HHHHHHHH
Confidence            66655443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.83  E-value=0.03  Score=44.84  Aligned_cols=128  Identities=13%  Similarity=0.109  Sum_probs=63.3

Q ss_pred             cCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhC-CCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-QLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         6 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      |++++|.++|-.+.++         ...+..+.+.|+|-.+.++++.=-.. .-..-..+|+.+...+.....|++|.+.
T Consensus       748 g~feeaek~yld~drr---------DLAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~y  818 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDADRR---------DLAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKY  818 (1189)
T ss_pred             cchhHhhhhhhccchh---------hhhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555544433         12344455556666555554431100 0001124566666666666666666666


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHH
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFH  156 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  156 (223)
                      +..-.      +.   ...+.++.+..++++...+...     ++.+....-.+..++...|.-++|.+.+-
T Consensus       819 Y~~~~------~~---e~~~ecly~le~f~~LE~la~~-----Lpe~s~llp~~a~mf~svGMC~qAV~a~L  876 (1189)
T KOG2041|consen  819 YSYCG------DT---ENQIECLYRLELFGELEVLART-----LPEDSELLPVMADMFTSVGMCDQAVEAYL  876 (1189)
T ss_pred             HHhcc------ch---HhHHHHHHHHHhhhhHHHHHHh-----cCcccchHHHHHHHHHhhchHHHHHHHHH
Confidence            65421      11   1234444444444443333332     34455556666666666666666666553

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.80  E-value=0.17  Score=39.57  Aligned_cols=117  Identities=16%  Similarity=0.162  Sum_probs=74.8

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHH-HHHHHHHhcCchhHHHHHHHHHHhCC---CCCcHHHHHHHHHHHHhcCChhH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYN-TIICGYCSLNRLDEAVQLFEKLTCVQ---LKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      ....+.|.++++.+.++  -|+...|. .-.+.+...|++++|++.|++.....   .+.....+--++-++.-..+|++
T Consensus       246 ~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            45677788888888876  44544443 44566777888888888888765321   11122334456666777788888


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHH-HHHHhhCCh-------hHHHHHHHHHH
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLI-DGYFKSQNM-------KSAFDVYEEMC  124 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~-------~~a~~~~~~~~  124 (223)
                      |.+.|..+.+.+.- +..+|.-+. .++...++.       ++|..+|.+..
T Consensus       324 A~~~f~~L~~~s~W-Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  324 AAEYFLRLLKESKW-SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHHhcccc-HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            88888888876433 444554443 334456666       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.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.76  E-value=0.16  Score=38.79  Aligned_cols=131  Identities=15%  Similarity=0.116  Sum_probs=101.1

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhCC-CCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHH
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-LKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (223)
                      .+|...+....+..-++.|..+|-+..+.+ ..+++..++.++..++ .|+..-|.++|+--...-+. ++..-...+..
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d-~~~y~~kyl~f  475 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPD-STLYKEKYLLF  475 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCC-chHHHHHHHHH
Confidence            356667777777777899999999999888 6778888888888775 57888999999876665333 33444556777


Q ss_pred             HHhhCChhHHHHHHHHHHHCCCCCC--hhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412          107 YFKSQNMKSAFDVYEEMCENNISPN--IVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      +...++-..|..+|+..... +..+  ...|..++..-..-|++..+..+-+++...
T Consensus       476 Li~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~  531 (660)
T COG5107         476 LIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL  531 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH
Confidence            78889999999999976643 2333  678999999999999999998888887764

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.76  E-value=0.076  Score=35.01  Aligned_cols=135  Identities=11%  Similarity=0.053  Sum_probs=93.9

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcH-HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHH-HHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS-ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVV-TYSCL  103 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l  103 (223)
                      +...|..-+. +.+.+..++|+.-|..+...|...-+ -..-.......+.|+...|...|+++-...+.|-.. -..-|
T Consensus        58 sgd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            4556666665 56778889999999999876633211 122234455677899999999999987765555433 11111


Q ss_pred             --HHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412          104 --IDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       104 --~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                        ...+...|.++.....++.+...+-+.-...-..|.-+-.+.|++.+|.++|..+.+.
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence              2345678889998888888876654555566778888888999999999999988764

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.74  E-value=0.14  Score=37.78  Aligned_cols=84  Identities=15%  Similarity=0.127  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYC  178 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  178 (223)
                      +.+.-+.-+...|+...|.++-.+..    -|+...|...+.+++..++|++-.++...   .   -++.-|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHHHH
Confidence            44445666677888888887766652    47888888889999999999887776432   1   23466788888888


Q ss_pred             hcCCcchHHHHHHH
Q 027412          179 KAGRPTEAMQLYDS  192 (223)
Q Consensus       179 ~~g~~~~a~~~~~~  192 (223)
                      ..|...+|..+..+
T Consensus       249 ~~~~~~eA~~yI~k  262 (319)
T PF04840_consen  249 KYGNKKEASKYIPK  262 (319)
T ss_pred             HCCCHHHHHHHHHh
Confidence            88998888888877

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

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.73  E-value=0.05  Score=38.96  Aligned_cols=78  Identities=13%  Similarity=0.107  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHHHH
Q 027412           98 VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD-----NHLLPDVVTYAI  172 (223)
Q Consensus        98 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~  172 (223)
                      .++..++..+...|+.+.+...++.+.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+...
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            356667888888999999999999999886 78899999999999999999999999998764     588888888777


Q ss_pred             HHHH
Q 027412          173 LIRG  176 (223)
Q Consensus       173 l~~~  176 (223)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            7666

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.71  E-value=0.1  Score=35.78  Aligned_cols=189  Identities=22%  Similarity=0.168  Sum_probs=136.5

Q ss_pred             CHHHHHHHHHHHhhCCCC-cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhC-CCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            7 HLDAALKLFGQLTDRGLE-PDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-QLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         7 ~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      .+..+...+......... .....+......+...+++..+...+...... ........+......+...+++..+...
T Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (291)
T COG0457          38 ELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALEL  117 (291)
T ss_pred             hHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHH
Confidence            445555566555554322 13567778888888899999999988888652 2244566777788888888899999999


Q ss_pred             HHHHHhcCCCccHHHHHHHHH-HHHhhCChhHHHHHHHHHHHCCC--CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           85 FSKMLEKGPKANVVTYSCLID-GYFKSQNMKSAFDVYEEMCENNI--SPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      +.........+ ......... .+...|+++.+...+++......  ......+......+...++.+.+...+......
T Consensus       118 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  196 (291)
T COG0457         118 LEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL  196 (291)
T ss_pred             HHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh
Confidence            99988765543 233333334 78899999999999999866321  123444555555577889999999999998876


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          162 HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       162 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      ........+..+...+...++++.+...+......
T Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  231 (291)
T COG0457         197 NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL  231 (291)
T ss_pred             CcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh
Confidence            54214677888888999999999999999998874

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.69  E-value=0.13  Score=36.88  Aligned_cols=124  Identities=14%  Similarity=0.117  Sum_probs=70.3

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHH
Q 027412           70 DAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLME  149 (223)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  149 (223)
                      ......|++.+|...|+......++ +...-..++.+|...|+.+.|..++..+-...-.........-+..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            3445667777777777777776655 455556677777777777777777776643321111112222233344433333


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          150 EALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       150 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      +...+-.+.-. ++ -|...-..+...+...|+.+.|.+.+-.+++.
T Consensus       221 ~~~~l~~~~aa-dP-dd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         221 EIQDLQRRLAA-DP-DDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             CHHHHHHHHHh-CC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            33333333322 22 25556666777777777777777766666554

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.69  E-value=0.2  Score=38.78  Aligned_cols=74  Identities=19%  Similarity=0.279  Sum_probs=54.2

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC-hhHHHHHH
Q 027412           66 TILIDAFCKEGRMDDATMMFSKMLEKGPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN-IVSYSILI  139 (223)
Q Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~  139 (223)
                      ..+..++.+.|+.++|++.+++|.+..+.. +......|+.++...+.+.++..++.+-.+...+.+ ...|+..+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            457777788899999999999998765432 445677799999999999999999988765433332 23455444

The molecular function of this protein is uncertain.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.53  E-value=0.0037  Score=29.07  Aligned_cols=20  Identities=20%  Similarity=0.396  Sum_probs=7.8

Q ss_pred             cHHHHHHHHHHHHhhCChhH
Q 027412           96 NVVTYSCLIDGYFKSQNMKS  115 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~  115 (223)
                      +..+|+.+...|...|++++
T Consensus        12 n~~a~~nla~~~~~~g~~~~   31 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEE   31 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHh
Confidence            33333333333333333333

>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=96.48  E-value=0.11  Score=34.75  Aligned_cols=98  Identities=16%  Similarity=-0.001  Sum_probs=70.3

Q ss_pred             HHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC--hhHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHH
Q 027412           98 VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN--IVSYSILIDGLCKRGLMEEALYAFHCALDN---HLLPDVVTYAI  172 (223)
Q Consensus        98 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~  172 (223)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+.  ...+-.+++.....+++..+...+.+....   +..++...--.
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            5788899999999999999999999987654443  346677888999999999999998877643   22122211111


Q ss_pred             H--HHHHHhcCCcchHHHHHHHHHH
Q 027412          173 L--IRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       173 l--~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      .  .-.+...+++.+|-+.|-....
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccCc
Confidence            1  1224567899999998876653

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.48  E-value=0.24  Score=37.21  Aligned_cols=82  Identities=17%  Similarity=0.159  Sum_probs=46.4

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHH--HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDII--TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      .|+++.|.+-|+-|...   |...  -...|.-.--+.|..+.|..+-+.....-.. -...+...+...+..|+|+.|+
T Consensus       133 eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~Al  208 (531)
T COG3898         133 EGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGAL  208 (531)
T ss_pred             cCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHH
Confidence            46677777777777642   1111  1222222233456666666666666544322 3455666777777777777777


Q ss_pred             HHHHHHHh
Q 027412           83 MMFSKMLE   90 (223)
Q Consensus        83 ~~~~~~~~   90 (223)
                      ++++.-+.
T Consensus       209 kLvd~~~~  216 (531)
T COG3898         209 KLVDAQRA  216 (531)
T ss_pred             HHHHHHHH
Confidence            77765543

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=96.46  E-value=0.16  Score=34.95  Aligned_cols=31  Identities=29%  Similarity=0.326  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHCC
Q 027412          167 VVTYAILIRGYCKAGRPTEAMQLYDSMLRNG  197 (223)
Q Consensus       167 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  197 (223)
                      ++||--+.+.+...|+.++|..+|+-.+..+
T Consensus       237 TEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         237 TETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            4678889999999999999999999887653

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.43  E-value=0.025  Score=42.39  Aligned_cols=133  Identities=14%  Similarity=0.110  Sum_probs=95.2

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHh----CCCC-CcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc----CCC-ccH
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTC----VQLK-PNSITFTILIDAFCKEGRMDDATMMFSKMLEK----GPK-ANV   97 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~   97 (223)
                      ..|..|...|.-.|+++.|+...+.-.+    .|-. .....+..|.+++.-.|+++.|.+.|+.....    |-. ...
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            3566777777778899999888765432    2211 13357888999999999999999998876432    221 133


Q ss_pred             HHHHHHHHHHHhhCChhHHHHHHHHHHHC-----CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           98 VTYSCLIDGYFKSQNMKSAFDVYEEMCEN-----NISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        98 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      ....+|...|.-..++++|+.++.+-...     +..-....+-.|..+|...|..++|+.+.+.-++
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            45566888888889999999988765432     1223466888899999999999999888776553

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.40  E-value=0.0053  Score=28.54  Aligned_cols=31  Identities=29%  Similarity=0.315  Sum_probs=17.9

Q ss_pred             HHHHHCCCCCChhHHHHHHHHHHhcCCHHHHH
Q 027412          121 EEMCENNISPNIVSYSILIDGLCKRGLMEEAL  152 (223)
Q Consensus       121 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  152 (223)
                      ++.++.. |.+..+|+.+...|...|++++|+
T Consensus         3 ~kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3444443 555666666666666666666654

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.39  E-value=0.24  Score=36.19  Aligned_cols=132  Identities=12%  Similarity=0.175  Sum_probs=81.7

Q ss_pred             hhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh--cC----ChhHHHHHHHHHHhcCCC---ccHHHHHHHHHHHHhhCCh
Q 027412           43 LDEAVQLFEKLTCVQLKPNSITFTILIDAFCK--EG----RMDDATMMFSKMLEKGPK---ANVVTYSCLIDGYFKSQNM  113 (223)
Q Consensus        43 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~  113 (223)
                      +++...+++.+.+.|+.-+..+|-........  ..    ...++..+++.|++..+-   ++..++..++..  ..++.
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            45677888999999888777666543333322  22    256788999999987653   233444444333  33443


Q ss_pred             ----hHHHHHHHHHHHCCCCCCh--hHHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 027412          114 ----KSAFDVYEEMCENNISPNI--VSYSILIDGLCKRGL--MEEALYAFHCALDNHLLPDVVTYAILIRG  176 (223)
Q Consensus       114 ----~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  176 (223)
                          +.+..+|+.+.+.|+..+-  .....++.......+  ..++.++++.+.+.++++....|..+.-.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHH
Confidence                4567788888887765432  333333333332222  44788889999999988777776655443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.39  E-value=0.24  Score=36.19  Aligned_cols=137  Identities=12%  Similarity=0.199  Sum_probs=84.2

Q ss_pred             CHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh--cC----chhHHHHHHHHHHhCCC---CCcHHHHHHHHHHHHhcCC
Q 027412            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCS--LN----RLDEAVQLFEKLTCVQL---KPNSITFTILIDAFCKEGR   77 (223)
Q Consensus         7 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~   77 (223)
                      .+++.+.+++.+.+.|...+..+|-+.......  ..    ...++..+|+.|++..+   .++-.++..++..  ..++
T Consensus        77 ~~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~  154 (297)
T PF13170_consen   77 AFKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSED  154 (297)
T ss_pred             HHHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--cccc
Confidence            356778888999999888777665553333333  22    35579999999988752   2233445444433  3333


Q ss_pred             ----hhHHHHHHHHHHhcCCCccH--HHHHHHHHHHHhhCC--hhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc
Q 027412           78 ----MDDATMMFSKMLEKGPKANV--VTYSCLIDGYFKSQN--MKSAFDVYEEMCENNISPNIVSYSILIDGLCKR  145 (223)
Q Consensus        78 ----~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  145 (223)
                          .+.++.+|+.+...|...+-  .....++.......+  ...+..+++.+.+.|+++....|..++-...-.
T Consensus       155 ~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~  230 (297)
T PF13170_consen  155 VEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLE  230 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcC
Confidence                35677788888887765432  233333333322222  347888999999999888877766655444333

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.37  E-value=0.31  Score=37.32  Aligned_cols=141  Identities=12%  Similarity=0.103  Sum_probs=86.5

Q ss_pred             HHhcCchhHHHHHHHHHHhCCCC-C---c-HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC
Q 027412           37 YCSLNRLDEAVQLFEKLTCVQLK-P---N-SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ  111 (223)
Q Consensus        37 ~~~~~~~~~a~~~~~~~~~~~~~-~---~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  111 (223)
                      +-+.+++.++..+|.++.+..-. |   . ...-+.++++|.. ++.+.....+....+..+. ....-.-..-.+.+.+
T Consensus        16 Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~~~-s~~l~LF~~L~~Y~~k   93 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQFGK-SAYLPLFKALVAYKQK   93 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhcCC-chHHHHHHHHHHHHhh
Confidence            44678899999999888654311 1   1 2233566777754 5677777777777665432 2222222233456778


Q ss_pred             ChhHHHHHHHHHHHC--CCCC------------ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC----CCCHHHHHHH
Q 027412          112 NMKSAFDVYEEMCEN--NISP------------NIVSYSILIDGLCKRGLMEEALYAFHCALDNHL----LPDVVTYAIL  173 (223)
Q Consensus       112 ~~~~a~~~~~~~~~~--~~~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l  173 (223)
                      ++.+|.+.+..-.+.  +..+            |-..=+..+.++...|++.++..+++++...-.    ..+..+|+.+
T Consensus        94 ~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~  173 (549)
T PF07079_consen   94 EYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRA  173 (549)
T ss_pred             hHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHH
Confidence            888888887665543  2121            111124556777788999999888888775433    3677888877


Q ss_pred             HHHHHh
Q 027412          174 IRGYCK  179 (223)
Q Consensus       174 ~~~~~~  179 (223)
                      +-.+.+
T Consensus       174 vlmlsr  179 (549)
T PF07079_consen  174 VLMLSR  179 (549)
T ss_pred             HHHHhH
Confidence            666655

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.37  E-value=0.13  Score=42.05  Aligned_cols=169  Identities=17%  Similarity=0.161  Sum_probs=97.1

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcC--HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPD--IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      ++...++-|+.+-+.   .+..++  ........+-+.+.|++++|...|-+-... ++|+.     ++.-|.......+
T Consensus       345 ~kK~ly~~Ai~LAk~---~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s~-----Vi~kfLdaq~Ikn  415 (933)
T KOG2114|consen  345 FKKNLYKVAINLAKS---QHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPSE-----VIKKFLDAQRIKN  415 (933)
T ss_pred             HHhhhHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChHH-----HHHHhcCHHHHHH
Confidence            344555556555443   222222  223444455566788999998888776532 23222     4455556666777


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      -..+++.+.+.|.. +...-..|+.+|.+.++.++..++.+... .|..  ..-....+..+.+.+-.++|..+-.+...
T Consensus       416 Lt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~  491 (933)
T KOG2114|consen  416 LTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK  491 (933)
T ss_pred             HHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc
Confidence            77788888888876 56666778889999988888777766544 2211  11234455556666666666655443322


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCcchHHHHHHH
Q 027412          161 NHLLPDVVTYAILIRGYCKAGRPTEAMQLYDS  192 (223)
Q Consensus       161 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  192 (223)
                           +......+   +-..+++++|++++..
T Consensus       492 -----he~vl~il---le~~~ny~eAl~yi~s  515 (933)
T KOG2114|consen  492 -----HEWVLDIL---LEDLHNYEEALRYISS  515 (933)
T ss_pred             -----CHHHHHHH---HHHhcCHHHHHHHHhc
Confidence                 23333332   2345666666666544

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.23  E-value=0.16  Score=32.48  Aligned_cols=126  Identities=15%  Similarity=0.140  Sum_probs=87.0

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc
Q 027412           66 TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR  145 (223)
Q Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  145 (223)
                      ..++..+.+.+.+.....+++.+...+. .+...++.++..|++.+ .++....++.      ..+......++..|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            3466777777889999999999888875 47888899999998764 4455555542      12344556678888888


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhh
Q 027412          146 GLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA-GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQ  214 (223)
Q Consensus       146 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  214 (223)
                      +.++++..++.++..         +...+..+... ++++.|.+++.+-      -++..|..++..+..
T Consensus        83 ~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l~  137 (140)
T smart00299       83 KLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALLD  137 (140)
T ss_pred             CcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHHc
Confidence            888888888876532         22233333444 7888888877762      256678877777654

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.21  E-value=0.32  Score=36.22  Aligned_cols=131  Identities=13%  Similarity=0.059  Sum_probs=88.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcC-----CCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC--CCC-CC-----
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLEKG-----PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN--NIS-PN-----  131 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~-~~-----  131 (223)
                      ...+..++...+.++++++.|+...+..     +-....++..|...|.+..|+++|.-+..++.+.  .+. .|     
T Consensus       125 ~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~ky  204 (518)
T KOG1941|consen  125 SLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKY  204 (518)
T ss_pred             hhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHH
Confidence            3456777777888999999998876532     2223457888999999999999988887766542  111 11     


Q ss_pred             -hhHHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          132 -IVSYSILIDGLCKRGLMEEALYAFHCALD----NHLLP-DVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       132 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                       ......+.-++...|.+..|.+..++..+    .|-++ .......+.+.|...|+.+.|+.-|+....
T Consensus       205 r~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  205 RAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHH
Confidence             11334455667788888888887776653    33221 234456778889999999988887776553

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=96.18  E-value=0.019  Score=27.03  Aligned_cols=23  Identities=17%  Similarity=0.063  Sum_probs=11.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHH
Q 027412          135 YSILIDGLCKRGLMEEALYAFHC  157 (223)
Q Consensus       135 ~~~l~~~~~~~~~~~~a~~~~~~  157 (223)
                      +..|...|.+.|++++|++++++
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            34445555555555555555554

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.16  E-value=0.34  Score=36.06  Aligned_cols=130  Identities=16%  Similarity=0.100  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCC-----CCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc----CCCccH--
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQ-----LKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK----GPKANV--   97 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~--   97 (223)
                      ....+..++...+.++++++.|+......     ......++..|...|.+..|+++|.-+..+....    ++. |.  
T Consensus       124 ~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~-d~~~  202 (518)
T KOG1941|consen  124 VSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLK-DWSL  202 (518)
T ss_pred             hhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcC-chhH
Confidence            44556777888888999999999876532     1123457889999999999999998777665442    222 21  


Q ss_pred             ----HHHHHHHHHHHhhCChhHHHHHHHHHHH----CCCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           98 ----VTYSCLIDGYFKSQNMKSAFDVYEEMCE----NNISP-NIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        98 ----~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                          .....+..++...|....|.+.-++..+    .|-.+ .......+.+.|...|+.+.|+.-|+...
T Consensus       203 kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  203 KYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence                1223355667778888888877776653    33222 23455677888999999999998888765

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.10  E-value=0.074  Score=38.51  Aligned_cols=101  Identities=21%  Similarity=0.231  Sum_probs=68.9

Q ss_pred             CCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCC---CCC--cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCcc
Q 027412           22 GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ---LKP--NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN   96 (223)
Q Consensus        22 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   96 (223)
                      |.+.+..+...++..-....+++.++..+-+++..-   ..|  +..++-   +.+.+ -++++++.++..-++-|+-||
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~i---rlllk-y~pq~~i~~l~npIqYGiF~d  134 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWI---RLLLK-YDPQKAIYTLVNPIQYGIFPD  134 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHH---HHHHc-cChHHHHHHHhCcchhccccc
Confidence            444445555566665555677888888877775431   111  223333   33322 367788888888888888889


Q ss_pred             HHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           97 VVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        97 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      ..+++.++..+.+.+++.+|.++...|...
T Consensus       135 qf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  135 QFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            999999999999999999988887777654

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=96.08  E-value=0.019  Score=27.01  Aligned_cols=26  Identities=19%  Similarity=0.244  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHH
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMC  124 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~  124 (223)
                      +|..|..+|.+.|++++|+.++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46677888888888888888888754

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.07  E-value=0.49  Score=36.76  Aligned_cols=84  Identities=13%  Similarity=0.065  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHHCC-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHH
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENN-ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL-LPDVVTYAILIRG  176 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~  176 (223)
                      +-..+..++-+.|+.++|.+.++++.+.. ......+...|+.++...+.+.++..++.+..+... +.-...|+..+--
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLk  340 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLK  340 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHH
Confidence            33557778889999999999999998653 112345788999999999999999999998765433 1223455555544


Q ss_pred             HHhcCC
Q 027412          177 YCKAGR  182 (223)
Q Consensus       177 ~~~~g~  182 (223)
                      +...++
T Consensus       341 aRav~d  346 (539)
T PF04184_consen  341 ARAVGD  346 (539)
T ss_pred             HHhhcc
Confidence            444443

The molecular function of this protein is uncertain.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.95  E-value=0.68  Score=37.34  Aligned_cols=60  Identities=20%  Similarity=0.236  Sum_probs=40.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-----------HHHHHHHHHHHHhcCCcchHHHHHHHHHHCCC
Q 027412          137 ILIDGLCKRGLMEEALYAFHCALDNHLLPD-----------VVTYAILIRGYCKAGRPTEAMQLYDSMLRNGI  198 (223)
Q Consensus       137 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  198 (223)
                      .+++.....++|++|..+-++..+.-  |+           ..-|...-++|.+.|+-.+|.++++++....+
T Consensus       778 siVqlHve~~~W~eAFalAe~hPe~~--~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnnav  848 (1081)
T KOG1538|consen  778 SLVQLHVETQRWDEAFALAEKHPEFK--DDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNNAV  848 (1081)
T ss_pred             HHhhheeecccchHhHhhhhhCcccc--ccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhhhh
Confidence            45566667788888888776654421  22           22355566778888999999999988876543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.94  E-value=0.54  Score=36.11  Aligned_cols=138  Identities=14%  Similarity=0.138  Sum_probs=87.9

Q ss_pred             ccccCHHHHHHHHHHHhhCCCC-cC----HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHH--HHHhc
Q 027412            3 IKECHLDAALKLFGQLTDRGLE-PD----IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILID--AFCKE   75 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~   75 (223)
                      .+.+++.+|.++|.++.+..-. |.    ...-+.++++|.. ++.+.....+....+..  |. ..|-.+..  .+.+.
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~--~~-s~~l~LF~~L~~Y~~   92 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQF--GK-SAYLPLFKALVAYKQ   92 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhc--CC-chHHHHHHHHHHHHh
Confidence            4678999999999998765222 11    2233566677664 45666666666665442  21 22333333  33467


Q ss_pred             CChhHHHHHHHHHHhc--CCCc------------cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC----CCChhHHHH
Q 027412           76 GRMDDATMMFSKMLEK--GPKA------------NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI----SPNIVSYSI  137 (223)
Q Consensus        76 ~~~~~a~~~~~~~~~~--~~~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~  137 (223)
                      +.+.+|.+.+......  +..|            +...=+..+.++...|.+.++..+++++...=+    ..+..+|+.
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~  172 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDR  172 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHH
Confidence            8899999888766554  2221            222335567888899999999999998875433    378888888


Q ss_pred             HHHHHHh
Q 027412          138 LIDGLCK  144 (223)
Q Consensus       138 l~~~~~~  144 (223)
                      ++-.+.+
T Consensus       173 ~vlmlsr  179 (549)
T PF07079_consen  173 AVLMLSR  179 (549)
T ss_pred             HHHHHhH
Confidence            6555543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.92  E-value=0.039  Score=25.34  Aligned_cols=26  Identities=23%  Similarity=0.422  Sum_probs=10.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHh
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLE   90 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~   90 (223)
                      |..+..+|...|++++|+..|++.++
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            33344444444444444444444433

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 ....

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=95.90  E-value=0.17  Score=30.07  Aligned_cols=44  Identities=9%  Similarity=0.153  Sum_probs=19.9

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 027412          151 ALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSML  194 (223)
Q Consensus       151 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  194 (223)
                      ..+-+..+...+..|++....+.+++|.+.+++..|.++++-..
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33444444444444555555555555555555555555554444

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 ....

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.90  E-value=0.23  Score=33.70  Aligned_cols=92  Identities=17%  Similarity=0.175  Sum_probs=65.8

Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCc----HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhh
Q 027412           35 CGYCSLNRLDEAVQLFEKLTCVQLKPN----SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS  110 (223)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  110 (223)
                      .-+...|++++|..-|...++.-+...    ...|..-..++.+.+.++.|+.-..+.++.++. ......--..+|.+.
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~  181 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKM  181 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhh
Confidence            446677888888888888876642222    234555566777888888888888888877665 444555556788888


Q ss_pred             CChhHHHHHHHHHHHCC
Q 027412          111 QNMKSAFDVYEEMCENN  127 (223)
Q Consensus       111 ~~~~~a~~~~~~~~~~~  127 (223)
                      ..+++|+.-|+++.+..
T Consensus       182 ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESD  198 (271)
T ss_pred             hhHHHHHHHHHHHHHhC
Confidence            88888888888888764

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.81  E-value=0.26  Score=38.20  Aligned_cols=102  Identities=18%  Similarity=0.144  Sum_probs=77.3

Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChh
Q 027412           35 CGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK  114 (223)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  114 (223)
                      ....+.|+++.|.++.++.      .+...|..|.....+.|+++-|++.|.+..         -|..|+-.|...|+.+
T Consensus       326 eLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~  390 (443)
T PF04053_consen  326 ELALQLGNLDIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDRE  390 (443)
T ss_dssp             HHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HH
T ss_pred             HHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHH
Confidence            4456789999998775543      378899999999999999999999998752         3566777888899998


Q ss_pred             HHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHH
Q 027412          115 SAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHC  157 (223)
Q Consensus       115 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  157 (223)
                      ...++.+.....|      -++....++...|+.++..+++.+
T Consensus       391 ~L~kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  391 KLSKLAKIAEERG------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHcc------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            8888888877765      356666667778999988888764

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.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=95.75  E-value=0.11  Score=30.55  Aligned_cols=45  Identities=4%  Similarity=-0.032  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412          115 SAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       115 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      ++.+-++.+...++-|++.+..+.+++|.+.+++..|.++++-.+
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444555555555555555555555555555555555555444

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.72  E-value=0.03  Score=25.74  Aligned_cols=27  Identities=33%  Similarity=0.362  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      +|..+..+|...|++++|+..|++.++
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            344444445555555555555544443

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 ....

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.63  E-value=0.67  Score=34.96  Aligned_cols=51  Identities=12%  Similarity=0.120  Sum_probs=34.4

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHh
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTC   55 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   55 (223)
                      +.|..+.|+.+-++.-... +.-...+...+...+..|+|+.|+++++.-.+
T Consensus       166 r~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~  216 (531)
T COG3898         166 RLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRA  216 (531)
T ss_pred             hcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHH
Confidence            4566677777776665542 22355677777888888888888888876554

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.60  E-value=0.38  Score=31.89  Aligned_cols=142  Identities=14%  Similarity=0.120  Sum_probs=96.2

Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHH-HHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChh-HHH--
Q 027412           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVT-YSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIV-SYS--  136 (223)
Q Consensus        61 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~--  136 (223)
                      +...|..-++. .+.+..++|+.-|..+.+.|...-+.. ---........|+...|...|.++-...-.|-.. -..  
T Consensus        58 sgd~flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            44556555544 467889999999999998876522221 1223455678899999999999987654333222 111  


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          137 ILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       137 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                      --...+...|.+++.....+-+-..+-+.-...-..|.-+-.+.|++.+|.+.|..+......|...
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~aprni  203 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAPRNI  203 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCcHHH
Confidence            1223456789999999888877654432333445677778889999999999999998875556544

>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=95.59  E-value=0.012  Score=37.82  Aligned_cols=82  Identities=18%  Similarity=0.260  Sum_probs=43.6

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCH
Q 027412           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLM  148 (223)
Q Consensus        69 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  148 (223)
                      +..+.+.+.++....+++.+...+...+....+.++..|++.++.++...+++..       +..-...++..|.+.|.+
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~l~   86 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHGLY   86 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTTSH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcchH
Confidence            4444455566666666666665544445666666666666666656666655511       112223445555555666


Q ss_pred             HHHHHHHHH
Q 027412          149 EEALYAFHC  157 (223)
Q Consensus       149 ~~a~~~~~~  157 (223)
                      +.+.-++.+
T Consensus        87 ~~a~~Ly~~   95 (143)
T PF00637_consen   87 EEAVYLYSK   95 (143)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHHH
Confidence            555555544

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.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.59  E-value=0.063  Score=24.50  Aligned_cols=24  Identities=33%  Similarity=0.479  Sum_probs=9.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHh
Q 027412           67 ILIDAFCKEGRMDDATMMFSKMLE   90 (223)
Q Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~~~   90 (223)
                      .+..++...|++++|++.|++..+
T Consensus         6 ~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    6 YLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHH
Confidence            334444444444444444444433

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 ....

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.57  E-value=0.55  Score=34.31  Aligned_cols=129  Identities=16%  Similarity=0.174  Sum_probs=85.0

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHH----------hCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcC---CCccHH
Q 027412           32 TIICGYCSLNRLDEAVQLFEKLT----------CVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKG---PKANVV   98 (223)
Q Consensus        32 ~l~~~~~~~~~~~~a~~~~~~~~----------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~   98 (223)
                      .|.+.|.....|+.-....-++.          ..|...+..+...++..-....+++.++.++-+++..-   ..|+..
T Consensus        24 ~LsS~fs~e~~w~~r~~~~~kla~~g~~~~kkF~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~  103 (418)
T KOG4570|consen   24 LLSSAFSDEHKWEAREKEHYKLADLGSLMDKKFERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT  103 (418)
T ss_pred             hhHHHhhhhhhhhHHHHHHHHHhcccccchhhhhcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc
Confidence            35556666666654433332222          22334445555556666666788899998887776531   111211


Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      . ...++.+. .-++++++..+..-++-|+.||..+++.++..+.+.+++.+|..+.-.|....
T Consensus       104 ~-~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  104 I-HTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             H-HHHHHHHH-ccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            1 22333333 34778999999998999999999999999999999999999998887776543

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=95.56  E-value=0.37  Score=31.46  Aligned_cols=51  Identities=16%  Similarity=0.026  Sum_probs=22.1

Q ss_pred             hcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHH
Q 027412           74 KEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (223)
Q Consensus        74 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  125 (223)
                      +.++.+++..++..+.-..|. ....-..-...+...|+|.+|..+|+.+..
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~-~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPE-FPELDLFDGWLHIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            344555555555554443332 122222223334445555555555555443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=95.53  E-value=1  Score=36.29  Aligned_cols=177  Identities=17%  Similarity=0.128  Sum_probs=108.7

Q ss_pred             CHHHHHHHHHHHhhCCCCcCHHHHHHHHHH-----HHhcCchhHHHHHHHHHHh-------CCCCCcHHHHHHHHHHHHh
Q 027412            7 HLDAALKLFGQLTDRGLEPDIITYNTIICG-----YCSLNRLDEAVQLFEKLTC-------VQLKPNSITFTILIDAFCK   74 (223)
Q Consensus         7 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~   74 (223)
                      ....|.+.++...+.|.   ......+..+     +....+.+.|+.+++.+.+       .+   .+.....+..+|.+
T Consensus       227 ~~~~a~~~~~~~a~~g~---~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~  300 (552)
T KOG1550|consen  227 ELSEAFKYYREAAKLGH---SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQ  300 (552)
T ss_pred             hhhHHHHHHHHHHhhcc---hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhc
Confidence            35678888888887752   2333333322     3355689999999998876       44   33356667778876


Q ss_pred             cC-----ChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh---hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHH---
Q 027412           75 EG-----RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK---SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLC---  143 (223)
Q Consensus        75 ~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---  143 (223)
                      ..     +.+.|..++.+....|.+ +....  +...+..   ..+...|.++|..+-..|.   ...+..+..+|.   
T Consensus       301 g~~~~~~d~~~A~~~~~~aA~~g~~-~a~~~--lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~---~~A~~~la~~y~~G~  374 (552)
T KOG1550|consen  301 GLGVEKIDYEKALKLYTKAAELGNP-DAQYL--LGVLYETGTKERDYRRAFEYYSLAAKAGH---ILAIYRLALCYELGL  374 (552)
T ss_pred             CCCCccccHHHHHHHHHHHHhcCCc-hHHHH--HHHHHHcCCccccHHHHHHHHHHHHHcCC---hHHHHHHHHHHHhCC
Confidence            43     567799999888877654 44333  3333333   2467899999999988872   333333333333   


Q ss_pred             -hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCC
Q 027412          144 -KRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNG  197 (223)
Q Consensus       144 -~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  197 (223)
                       -..+...|..++.+..+.|. |...--...+..+.. ++++.+.-.+..+...|
T Consensus       375 gv~r~~~~A~~~~k~aA~~g~-~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  375 GVERNLELAFAYYKKAAEKGN-PSAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             CcCCCHHHHHHHHHHHHHccC-hhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence             23578899999999888873 332222222233333 67777666666665554

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=95.53  E-value=0.38  Score=31.40  Aligned_cols=96  Identities=15%  Similarity=0.032  Sum_probs=62.6

Q ss_pred             HHHHHHhhCChhHHHHHHHHHHHCCCCCChh-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 027412          103 LIDGYFKSQNMKSAFDVYEEMCENNISPNIV-SYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG  181 (223)
Q Consensus       103 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  181 (223)
                      ++..-...++.+.+..++..+.-.  .|... .-..-...+...|+|.+|..+|+.+....  |....-..|+..|....
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--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYAL   91 (160)
T ss_pred             HHHHHHccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHc
Confidence            444556778999999999999874  44433 33344566889999999999999987654  33333444544444444


Q ss_pred             CcchHHHHHHHHHHCCCCCch
Q 027412          182 RPTEAMQLYDSMLRNGIMPDG  202 (223)
Q Consensus       182 ~~~~a~~~~~~~~~~~~~p~~  202 (223)
                      +-..-...-.++.+.+-.|+.
T Consensus        92 ~D~~Wr~~A~evle~~~d~~a  112 (160)
T PF09613_consen   92 GDPSWRRYADEVLESGADPDA  112 (160)
T ss_pred             CChHHHHHHHHHHhcCCChHH
Confidence            444455566667776544443

>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=95.46  E-value=0.35  Score=30.50  Aligned_cols=67  Identities=18%  Similarity=0.155  Sum_probs=41.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCC
Q 027412          132 IVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIM  199 (223)
Q Consensus       132 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  199 (223)
                      ...+...+.....+|.-|+-.+++..+.+. -.+++...-.+..+|.+.|+..++.+++.++.+.|++
T Consensus        86 se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   86 SEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             -HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            445555666677777777777777776642 2366777777777788888888888888777777753

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.46  E-value=0.042  Score=25.12  Aligned_cols=26  Identities=23%  Similarity=0.460  Sum_probs=12.1

Q ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          170 YAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       170 ~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      +..+..++...|++++|++.|++..+
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34444444555555555555554444

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=95.34  E-value=0.43  Score=32.44  Aligned_cols=79  Identities=16%  Similarity=0.159  Sum_probs=61.5

Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc---CCCccHHHHHHHHHHHHhhCCh
Q 027412           37 YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK---GPKANVVTYSCLIDGYFKSQNM  113 (223)
Q Consensus        37 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~  113 (223)
                      ..+.| -+.|...|-.+...+.--++.....|...|. ..+.+++..++-+..+.   +..+|+..+..|+..+.+.|++
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 WSRFG-DQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccC-cHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            34444 4678888888877765557777777777776 56899999999888765   3367899999999999999999


Q ss_pred             hHHH
Q 027412          114 KSAF  117 (223)
Q Consensus       114 ~~a~  117 (223)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            9875

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=95.33  E-value=0.15  Score=37.49  Aligned_cols=96  Identities=19%  Similarity=0.154  Sum_probs=57.9

Q ss_pred             HHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCc
Q 027412          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRP  183 (223)
Q Consensus       104 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  183 (223)
                      ..-|.+.|.+++|+.+|....... +.+..++..-..+|.+...+..|..-....+..+- .-...|+--..+-...|..
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~-~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDK-LYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhH-HHHHHHHHHHHHHHHHhhH
Confidence            344667777777777777766542 34777777777777777777766665555544321 1233455445555555666


Q ss_pred             chHHHHHHHHHHCCCCCchh
Q 027412          184 TEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       184 ~~a~~~~~~~~~~~~~p~~~  203 (223)
                      .+|.+-++..++  +.|+..
T Consensus       182 ~EAKkD~E~vL~--LEP~~~  199 (536)
T KOG4648|consen  182 MEAKKDCETVLA--LEPKNI  199 (536)
T ss_pred             HHHHHhHHHHHh--hCcccH
Confidence            666666666555  455543

>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=95.31  E-value=0.42  Score=32.50  Aligned_cols=80  Identities=14%  Similarity=0.035  Sum_probs=59.4

Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC---CCCCChhHHHHHHHHHHhcCCH
Q 027412           72 FCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN---NISPNIVSYSILIDGLCKRGLM  148 (223)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~  148 (223)
                      +.+.|+ +.|.+.|-.+...+.--++.....|...| ...+.+++..++-...+.   +-.+|+..+..|+..+.+.|++
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-QEALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            445555 56888888887765543555555555544 478999999999888754   3367899999999999999999


Q ss_pred             HHHHH
Q 027412          149 EEALY  153 (223)
Q Consensus       149 ~~a~~  153 (223)
                      +.|.-
T Consensus       195 e~AYi  199 (203)
T PF11207_consen  195 EQAYI  199 (203)
T ss_pred             hhhhh
Confidence            98863

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=95.30  E-value=0.81  Score=35.58  Aligned_cols=119  Identities=13%  Similarity=0.116  Sum_probs=69.4

Q ss_pred             ccCHHHHHHH-HHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            5 ECHLDAALKL-FGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         5 ~g~~~~A~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      .|++..|-+- +.-+...  +.++.........+...|+++.+...+...... +.....+...+++...+.|++++|..
T Consensus       302 ~gd~~aas~~~~~~lr~~--~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s  378 (831)
T PRK15180        302 DGDIIAASQQLFAALRNQ--QQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALS  378 (831)
T ss_pred             ccCHHHHHHHHHHHHHhC--CCCchhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHH
Confidence            3555544333 3333332  223333344445566677777777776655322 12244556667777777778888777


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  127 (223)
                      +-.-|....++ ++..........-..|-++++...|++....+
T Consensus       379 ~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        379 TAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             HHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            77777766555 55555544555555666777777777776654

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.22  E-value=0.8  Score=33.23  Aligned_cols=164  Identities=12%  Similarity=0.106  Sum_probs=103.0

Q ss_pred             HHhcCchhHHHHHHHHHHhCC--CCCcHH-----HHHHHHHHHHhcC-ChhHHHHHHHHHHhc--------CCCcc----
Q 027412           37 YCSLNRLDEAVQLFEKLTCVQ--LKPNSI-----TFTILIDAFCKEG-RMDDATMMFSKMLEK--------GPKAN----   96 (223)
Q Consensus        37 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~-----~~~~l~~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~----   96 (223)
                      ..+.|+.+.|..++.+.....  ..|+..     .+..++......+ +++.|...+++..+.        ...|+    
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            356899999999999886543  233321     2333444445566 888888877765443        11122    


Q ss_pred             -HHHHHHHHHHHHhhCChhH---HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 027412           97 -VVTYSCLIDGYFKSQNMKS---AFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAI  172 (223)
Q Consensus        97 -~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  172 (223)
                       ..++..++.+|...+..+.   |..+++.+... .+..+.++..-+..+.+.++.+.+.+.+.+|...-. .....+..
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~-~~e~~~~~  160 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVD-HSESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcc-cccchHHH
Confidence             2467778888888777654   55566666443 233456666777778888999999999999987632 13344444


Q ss_pred             HHHHH---HhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          173 LIRGY---CKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       173 l~~~~---~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                      ++..+   .. .....+...+..+....+.|...
T Consensus       161 ~l~~i~~l~~-~~~~~a~~~ld~~l~~r~~~~~~  193 (278)
T PF08631_consen  161 ILHHIKQLAE-KSPELAAFCLDYLLLNRFKSSED  193 (278)
T ss_pred             HHHHHHHHHh-hCcHHHHHHHHHHHHHHhCCChh
Confidence            44444   33 33456777777776665666654

It is also involved in sporulation [].

>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=95.17  E-value=0.44  Score=30.04  Aligned_cols=67  Identities=18%  Similarity=0.070  Sum_probs=46.4

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      +.......+......|.-+.-.+++..+.+.+ .+++...-.+..+|.+.|+..++-+++.++-+.|.
T Consensus        85 ~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   85 LSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             --HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            44556667777888888888888888877544 67788888888888888888888888888888776

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.07  E-value=0.87  Score=32.87  Aligned_cols=146  Identities=11%  Similarity=0.102  Sum_probs=98.3

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHh-CCCCCcHHHHHHHHHHHHh-cC-ChhHHHHHHHHHHh-cCCCccHHHHHHHHH
Q 027412           30 YNTIICGYCSLNRLDEAVQLFEKLTC-VQLKPNSITFTILIDAFCK-EG-RMDDATMMFSKMLE-KGPKANVVTYSCLID  105 (223)
Q Consensus        30 ~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~  105 (223)
                      |..|+.   ....+.+|+.+|+..-. ..+--|..+...+++.... .+ ....-.++.+-+.. .+..++..+....+.
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH
Confidence            555543   34456788888884332 2344577777778887766 22 22222333333333 235567788888999


Q ss_pred             HHHhhCChhHHHHHHHHHHHC-CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHH-----HhCCCCCCHHHHHHHHHHHH
Q 027412          106 GYFKSQNMKSAFDVYEEMCEN-NISPNIVSYSILIDGLCKRGLMEEALYAFHCA-----LDNHLLPDVVTYAILIRGYC  178 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~~~~~~l~~~~~  178 (223)
                      .++..++|.+-.++++..... +...|...|..++......|+..-..++..+-     .+.++..+...-..+-+.+.
T Consensus       211 ~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~  289 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFK  289 (292)
T ss_pred             HHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHH
Confidence            999999999999999988755 55678899999999999999998888877642     24456566665555544443

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=94.99  E-value=0.79  Score=35.64  Aligned_cols=91  Identities=11%  Similarity=0.026  Sum_probs=46.2

Q ss_pred             HHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 027412          103 LIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR  182 (223)
Q Consensus       103 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  182 (223)
                      ........|+++.+.+.+...... +.....+...+++...+.|+++.|...-.-|+...+ .+++......-.....|-
T Consensus       329 ~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~ei-e~~ei~~iaa~sa~~l~~  406 (831)
T PRK15180        329 RSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEI-EDEEVLTVAAGSADALQL  406 (831)
T ss_pred             HHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhcccc-CChhheeeecccHHHHhH
Confidence            334445556666666555544332 223344555566666666666666666555554444 233333333333344455


Q ss_pred             cchHHHHHHHHHH
Q 027412          183 PTEAMQLYDSMLR  195 (223)
Q Consensus       183 ~~~a~~~~~~~~~  195 (223)
                      ++++.-.|+++..
T Consensus       407 ~d~~~~~wk~~~~  419 (831)
T PRK15180        407 FDKSYHYWKRVLL  419 (831)
T ss_pred             HHHHHHHHHHHhc
Confidence            5555555555543

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=94.91  E-value=1.7  Score=35.49  Aligned_cols=186  Identities=16%  Similarity=0.181  Sum_probs=110.8

Q ss_pred             HHHHHHHHHHHhh-CCCCcC--HHHHHHHHHHHH-hcCchhHHHHHHHHHHhCCCCCcH-----HHHHHHHHHHHhcCCh
Q 027412            8 LDAALKLFGQLTD-RGLEPD--IITYNTIICGYC-SLNRLDEAVQLFEKLTCVQLKPNS-----ITFTILIDAFCKEGRM   78 (223)
Q Consensus         8 ~~~A~~~~~~~~~-~~~~~~--~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~   78 (223)
                      +..|+..++.+.+ ..++|.  ..++-.+...+. ...+++.|...+++.....-.++.     .....++..+.+.+..
T Consensus        37 I~~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~  116 (608)
T PF10345_consen   37 IATAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPK  116 (608)
T ss_pred             HHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHH
Confidence            3456777777773 333333  335566677666 567899999999987544322322     2234566777776665


Q ss_pred             hHHHHHHHHHHhcC----CCccHHHHHHH-HHHHHhhCChhHHHHHHHHHHHCC---CCCChhHHHHHHHHHH--hcCCH
Q 027412           79 DDATMMFSKMLEKG----PKANVVTYSCL-IDGYFKSQNMKSAFDVYEEMCENN---ISPNIVSYSILIDGLC--KRGLM  148 (223)
Q Consensus        79 ~~a~~~~~~~~~~~----~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~--~~~~~  148 (223)
                      . |...+++.++.-    ..+-...|..+ +..+...+++..|.+.++.+....   ..|...++..++.+..  +.+..
T Consensus       117 ~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~  195 (608)
T PF10345_consen  117 A-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSP  195 (608)
T ss_pred             H-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCc
Confidence            5 888888776542    22233344433 333334479999999998877432   2344445555555544  45656


Q ss_pred             HHHHHHHHHHHhCC---------CCCCHHHHHHHHHHH--HhcCCcchHHHHHHHHH
Q 027412          149 EEALYAFHCALDNH---------LLPDVVTYAILIRGY--CKAGRPTEAMQLYDSML  194 (223)
Q Consensus       149 ~~a~~~~~~~~~~~---------~~~~~~~~~~l~~~~--~~~g~~~~a~~~~~~~~  194 (223)
                      +++.+.++++....         -.|...+|..+++.+  ...|+++.+...++++.
T Consensus       196 ~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  196 DDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             hhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            77777777663211         124556777776664  46677667777666654

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.80  E-value=1.8  Score=35.95  Aligned_cols=147  Identities=17%  Similarity=0.118  Sum_probs=94.6

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHH----HHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHH
Q 027412           30 YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITF----TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (223)
Q Consensus        30 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (223)
                      ...-+....+...++-|+.+.+.-   +  .+..+.    .....-+.+.|++++|...|-+.+.. .+|     ..++.
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~~---~--~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~  405 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKSQ---H--LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIK  405 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhc---C--CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHH
Confidence            344455666666677777665543   2  233333    33444556789999999888666543 232     23566


Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcch
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTE  185 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  185 (223)
                      -|........-..+++.+.+.|+ .+...-..|+.+|.+.++.++-.++.+...+.-+..|.   ...+..+.+.+-.++
T Consensus       406 kfLdaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~---e~al~Ilr~snyl~~  481 (933)
T KOG2114|consen  406 KFLDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDV---ETALEILRKSNYLDE  481 (933)
T ss_pred             HhcCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeH---HHHHHHHHHhChHHH
Confidence            67777788888899999999984 55667788999999999999998888765421122233   334555555555555


Q ss_pred             HHHHHH
Q 027412          186 AMQLYD  191 (223)
Q Consensus       186 a~~~~~  191 (223)
                      |..+..
T Consensus       482 a~~LA~  487 (933)
T KOG2114|consen  482 AELLAT  487 (933)
T ss_pred             HHHHHH
Confidence            554443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.75  E-value=0.76  Score=37.51  Aligned_cols=105  Identities=12%  Similarity=0.077  Sum_probs=65.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC
Q 027412           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL  147 (223)
Q Consensus        68 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  147 (223)
                      -+.-+...|+..+|.++-.+.+    -|+-..|-.-+.+++..++|++-+++-+...      .+.-|..++.+|.+.|+
T Consensus       690 Tv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n  759 (829)
T KOG2280|consen  690 TVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGN  759 (829)
T ss_pred             HHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhccc
Confidence            3344455677777777766653    3466677767777777777776555544332      14456667777777888


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHH
Q 027412          148 MEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYD  191 (223)
Q Consensus       148 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  191 (223)
                      .++|.+++-+...     ..    ..+.+|.+.|++.+|.++.-
T Consensus       760 ~~EA~KYiprv~~-----l~----ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  760 KDEAKKYIPRVGG-----LQ----EKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             HHHHhhhhhccCC-----hH----HHHHHHHHhccHHHHHHHHH
Confidence            8888777754421     11    45566677777776666543

>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=94.75  E-value=0.77  Score=30.65  Aligned_cols=28  Identities=14%  Similarity=0.298  Sum_probs=13.1

Q ss_pred             hhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412          113 MKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus       113 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      +++|...|+++...  .|+...|+.-+...
T Consensus        96 F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~  123 (186)
T PF06552_consen   96 FEKATEYFQKAVDE--DPNNELYRKSLEMA  123 (186)
T ss_dssp             HHHHHHHHHHHHHH---TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc--CCCcHHHHHHHHHH
Confidence            34444555554442  45556665555444

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.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.70  E-value=0.84  Score=30.90  Aligned_cols=129  Identities=12%  Similarity=0.085  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHH--HHHHHHhhCChhHHHHHHHHHHHCCCCCChhHH----
Q 027412           62 SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSC--LIDGYFKSQNMKSAFDVYEEMCENNISPNIVSY----  135 (223)
Q Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----  135 (223)
                      ...|..++.... .+.+ +......++...+......++..  +...+...+++++|...++.....   |....+    
T Consensus        54 S~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~  128 (207)
T COG2976          54 SAQYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ---TKDENLKALA  128 (207)
T ss_pred             HHHHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHH
Confidence            345665666553 3333 55666666766543423333333  456778899999999999987753   222223    


Q ss_pred             -HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCC
Q 027412          136 -SILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNG  197 (223)
Q Consensus       136 -~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  197 (223)
                       ..|.+.....|.+|+|+..++.....++  .......-.+.+...|+-++|+.-|++.++.+
T Consensus       129 ~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         129 ALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence             3355677788999999999987665443  33334556777899999999999999999875

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=94.67  E-value=0.13  Score=24.67  Aligned_cols=26  Identities=31%  Similarity=0.305  Sum_probs=13.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      +++.+...|...|++++|..++++..
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            44555555555555555555555443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.60  E-value=2  Score=34.69  Aligned_cols=151  Identities=15%  Similarity=0.097  Sum_probs=97.4

Q ss_pred             cccccCHHHHHHHHHHHhh-------CCCCcCHHHHHHHHHHHHhcC-----chhHHHHHHHHHHhCCCCCcHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTD-------RGLEPDIITYNTIICGYCSLN-----RLDEAVQLFEKLTCVQLKPNSITFTILI   69 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~   69 (223)
                      +....+++.|+.+|+.+..       .+   .+.....+..+|.+..     +...|..++.+..+.|. |+....  +.
T Consensus       259 ~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~--lg  332 (552)
T KOG1550|consen  259 YGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGN-PDAQYL--LG  332 (552)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCC-chHHHH--HH
Confidence            3456789999999998876       44   3335667777777743     66789999999988773 344333  44


Q ss_pred             HHHHhc---CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHH----hhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           70 DAFCKE---GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF----KSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        70 ~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      .++..-   .+...|.++|......|.. .  .+-.+..+|.    -..+.+.|..++++.-+.| .|........+..+
T Consensus       333 ~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~--A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~  408 (552)
T KOG1550|consen  333 VLYETGTKERDYRRAFEYYSLAAKAGHI-L--AIYRLALCYELGLGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEY  408 (552)
T ss_pred             HHHHcCCccccHHHHHHHHHHHHHcCCh-H--HHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHH
Confidence            444332   4678999999999888764 2  2222333332    3357889999999999887 44323223333334


Q ss_pred             HhcCCHHHHHHHHHHHHhCCC
Q 027412          143 CKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      .. +.++.+.-.+..+...+.
T Consensus       409 g~-~~~~~~~~~~~~~a~~g~  428 (552)
T KOG1550|consen  409 GV-GRYDTALALYLYLAELGY  428 (552)
T ss_pred             cc-ccccHHHHHHHHHHHhhh
Confidence            44 677777666666655543

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=94.49  E-value=0.15  Score=24.48  Aligned_cols=25  Identities=20%  Similarity=0.446  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKM   88 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~   88 (223)
                      +++.|...|...|++++|..++++.
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHH
Confidence            3444444444444444444444443

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=94.40  E-value=1.3  Score=31.83  Aligned_cols=115  Identities=16%  Similarity=0.116  Sum_probs=76.6

Q ss_pred             cCHHHHHHHHHHHhhC-----CC-CcC-------HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHH
Q 027412            6 CHLDAALKLFGQLTDR-----GL-EPD-------IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAF   72 (223)
Q Consensus         6 g~~~~A~~~~~~~~~~-----~~-~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   72 (223)
                      .+|..|++..++-.+.     .. .+.       ......=|++++..++|.++..+.-+..+.--+..+.+...-|-.|
T Consensus        49 rdF~aal~tCerglqsL~~~a~~ee~~~~~~evK~sLcvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLy  128 (309)
T PF07163_consen   49 RDFQAALETCERGLQSLASDADAEEPAGSSLEVKCSLCVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLY  128 (309)
T ss_pred             HHHHHHHHHHHHHHHHhcccccccccccchhhhhhhhhhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHH
Confidence            4567777777665432     01 111       1223345789999999999998887775543334455666677788


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHH-----hhCChhHHHHHH
Q 027412           73 CKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF-----KSQNMKSAFDVY  120 (223)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-----~~~~~~~a~~~~  120 (223)
                      .+.+.+..+.++-..-.+..-.-+...|..++..|.     -.|.+++|+++.
T Consensus       129 sKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  129 SKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence            999999999988877766432234455776666654     468899888877

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

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.39  E-value=0.57  Score=27.65  Aligned_cols=45  Identities=13%  Similarity=0.108  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHH
Q 027412           45 EAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKML   89 (223)
Q Consensus        45 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   89 (223)
                      ++.+-++.+......|++......+++|.+.+++..|+++|+-..
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444433

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.28  E-value=1.3  Score=31.28  Aligned_cols=187  Identities=13%  Similarity=0.066  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcH------HHHHHHHHHHHhcCChhHHHHHHHHHHhc---CCCccH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS------ITFTILIDAFCKEGRMDDATMMFSKMLEK---GPKANV   97 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~   97 (223)
                      ...|.....+|...+++++|..-+.+..+-. +.+.      ..|...+...-....+.++..++++....   .-.|++
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~y-EnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~Gspdt  109 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKGY-ENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECGSPDT  109 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHHH-HhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcch
Confidence            4567777888999999999988887775221 2122      23444444445556677777777765432   223343


Q ss_pred             HHHHHHHHH--HHhhCChhHHHHHHHHHHHC---C--CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC
Q 027412           98 VTYSCLIDG--YFKSQNMKSAFDVYEEMCEN---N--ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN----HLLPD  166 (223)
Q Consensus        98 ~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~---~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~  166 (223)
                      .... |-++  .....++++|+++|++....   +  .+--...+....+.+.+...+++|-..+.+-...    .-.++
T Consensus       110 AAma-leKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~  188 (308)
T KOG1585|consen  110 AAMA-LEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNS  188 (308)
T ss_pred             HHHH-HHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhccc
Confidence            3321 2222  24556788888888876532   1  0111234566667788888888877666543211    11122


Q ss_pred             H-HHHHHHHHHHHhcCCcchHHHHHHHHHHCC---CCCchhhHHHHhhhHhhc
Q 027412          167 V-VTYAILIRGYCKAGRPTEAMQLYDSMLRNG---IMPDGLLLSTLADYNLQS  215 (223)
Q Consensus       167 ~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~p~~~~~~~l~~~~~~~  215 (223)
                      . ..|...|-.+....++..|...++.--+-+   -.-+..+...|+.+|-..
T Consensus       189 ~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd~g  241 (308)
T KOG1585|consen  189 QCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDEG  241 (308)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhccC
Confidence            2 345566666777789999999998855432   223456778888887443

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=94.28  E-value=0.1  Score=25.87  Aligned_cols=23  Identities=17%  Similarity=0.166  Sum_probs=11.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 027412          138 LIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus       138 l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      +..+|...|+.+.|.+++++...
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            34445555555555555554443

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=94.25  E-value=0.32  Score=35.91  Aligned_cols=92  Identities=18%  Similarity=0.151  Sum_probs=59.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCH
Q 027412           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLM  148 (223)
Q Consensus        69 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  148 (223)
                      .+-|.+.|.+++|+..|.......+. |++++..-..+|.+...+..|..--..+...+ ..-...|.--+.+-...|..
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~~P~-NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAVYPH-NPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhccCCC-CccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhH
Confidence            34567788888888888877765543 77788888888888888877776666655433 22233444444444455666


Q ss_pred             HHHHHHHHHHHhCC
Q 027412          149 EEALYAFHCALDNH  162 (223)
Q Consensus       149 ~~a~~~~~~~~~~~  162 (223)
                      .+|.+-++..++..
T Consensus       182 ~EAKkD~E~vL~LE  195 (536)
T KOG4648|consen  182 MEAKKDCETVLALE  195 (536)
T ss_pred             HHHHHhHHHHHhhC
Confidence            66666666655543

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.09  E-value=1.2  Score=30.37  Aligned_cols=93  Identities=20%  Similarity=0.242  Sum_probs=72.2

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCcc----HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc
Q 027412           70 DAFCKEGRMDDATMMFSKMLEKGPKAN----VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR  145 (223)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  145 (223)
                      +-+...|++++|..-|...+..-+...    ...|..-..++.+.+.++.|+.--.+.++.+ +.....+.--..+|.+.
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKM  181 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhh
Confidence            445678999999999999888754322    3456667778899999999999988888865 33444555556789999


Q ss_pred             CCHHHHHHHHHHHHhCCC
Q 027412          146 GLMEEALYAFHCALDNHL  163 (223)
Q Consensus       146 ~~~~~a~~~~~~~~~~~~  163 (223)
                      ..++.|++-|+++.+..+
T Consensus       182 ek~eealeDyKki~E~dP  199 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESDP  199 (271)
T ss_pred             hhHHHHHHHHHHHHHhCc
Confidence            999999999999988764

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=94.07  E-value=1.6  Score=31.63  Aligned_cols=71  Identities=17%  Similarity=0.118  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH-----CCCCCchhhH
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR-----NGIMPDGLLL  205 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~p~~~~~  205 (223)
                      +++.....|..+|.+.+|.++.++....++ .+...+..++..+...|+--.+.+-++++.+     .|+..+...+
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldp-L~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsie  356 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDP-LSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIE  356 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcCh-hhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHH
Confidence            455666778888888888888888887765 5777788888888888887777766666543     2666665544

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=94.05  E-value=0.99  Score=29.11  Aligned_cols=54  Identities=13%  Similarity=-0.029  Sum_probs=34.8

Q ss_pred             HhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC
Q 027412           73 CKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (223)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  127 (223)
                      ...++++++..+++.|.-..|+ ....-..-...+...|+|++|.++|+.+.+.+
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~-~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPN-LKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCC-ccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            3467778888888777765444 22222233455667788888888888777653

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=93.94  E-value=0.17  Score=22.75  Aligned_cols=22  Identities=23%  Similarity=0.519  Sum_probs=9.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHHh
Q 027412           69 IDAFCKEGRMDDATMMFSKMLE   90 (223)
Q Consensus        69 ~~~~~~~~~~~~a~~~~~~~~~   90 (223)
                      ..++.+.|++++|.+.|+++.+
T Consensus         7 a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    7 ARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHH
Confidence            3334444444444444444443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=93.89  E-value=2.6  Score=33.27  Aligned_cols=164  Identities=13%  Similarity=0.062  Sum_probs=101.0

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (223)
                      |....-+++..+.....+.-+..+..+|...|  .+...+..++.+|... ..++-..+++++.+.... ++..-..|..
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            44456677777777778888888888887765  3666777888888887 556777888888777665 5554455555


Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCC-----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHh
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISP-----NIVSYSILIDGLCKRGLMEEALYAFHCALD-NHLLPDVVTYAILIRGYCK  179 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~  179 (223)
                      .|-+ ++.+.+..+|.++...-++.     -...|.-+...  -..+.+..+.+..+... .|...-...+.-+-.-|..
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~  217 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            5544 77777777777776542220     11233333321  13455555555555543 2333334445555566777


Q ss_pred             cCCcchHHHHHHHHHHC
Q 027412          180 AGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       180 ~g~~~~a~~~~~~~~~~  196 (223)
                      ..++++|++++..+++.
T Consensus       218 ~eN~~eai~Ilk~il~~  234 (711)
T COG1747         218 NENWTEAIRILKHILEH  234 (711)
T ss_pred             ccCHHHHHHHHHHHhhh
Confidence            77777777777766554

>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=93.62  E-value=1.4  Score=29.45  Aligned_cols=75  Identities=20%  Similarity=0.186  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC-----------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCc
Q 027412          115 SAFDVYEEMCENNISPNIVSYSILIDGLCKRG-----------LMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRP  183 (223)
Q Consensus       115 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  183 (223)
                      +|..-|++.+..+ |....++..+..+|...+           .+++|...|++..+.  .|+..+|+.-+....     
T Consensus        53 dAisK~eeAL~I~-P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~~-----  124 (186)
T PF06552_consen   53 DAISKFEEALKIN-PNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDE--DPNNELYRKSLEMAA-----  124 (186)
T ss_dssp             HHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHH-----
T ss_pred             HHHHHHHHHHhcC-CchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhc--CCCcHHHHHHHHHHH-----
Confidence            3344444444432 222355555655555332           355666666666654  478888887777653     


Q ss_pred             chHHHHHHHHHHCCC
Q 027412          184 TEAMQLYDSMLRNGI  198 (223)
Q Consensus       184 ~~a~~~~~~~~~~~~  198 (223)
                       +|-++..++.+.+.
T Consensus       125 -kap~lh~e~~~~~~  138 (186)
T PF06552_consen  125 -KAPELHMEIHKQGL  138 (186)
T ss_dssp             -THHHHHHHHHHSSS
T ss_pred             -hhHHHHHHHHHHHh
Confidence             47777777776643

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.

>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=93.58  E-value=0.31  Score=22.10  Aligned_cols=27  Identities=22%  Similarity=0.288  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHH
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  125 (223)
                      +|..+...|...|++++|...|++..+
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            344455555555555555555555544

...

>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=93.49  E-value=0.34  Score=21.96  Aligned_cols=27  Identities=37%  Similarity=0.258  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      +|..+...|...|++++|.+.|++..+
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            345555556666666666666655543

...

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.46  E-value=1.5  Score=29.09  Aligned_cols=133  Identities=12%  Similarity=0.149  Sum_probs=56.4

Q ss_pred             HHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC
Q 027412           49 LFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (223)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  128 (223)
                      ++..+.+.+++|+...+..+++.+.+.|++.....    +.+.++-+|.......+-.+.  +.+..+.++=-.|..+ +
T Consensus        16 YirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~q----llq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR-L   88 (167)
T PF07035_consen   16 YIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQ----LLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR-L   88 (167)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH----HHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH-h
Confidence            33444445556666666666666666665443332    222233333333332222221  1222222222222211 0


Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          129 SPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       129 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                         ...+..++..+...|++-+|.++.+......- ++   ...++.+....+|...-..+++-..+
T Consensus        89 ---~~~~~~iievLL~~g~vl~ALr~ar~~~~~~~-~~---~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   89 ---GTAYEEIIEVLLSKGQVLEALRYARQYHKVDS-VP---ARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ---hhhHHHHHHHHHhCCCHHHHHHHHHHcCCccc-CC---HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               11334455556666666666666654322111 11   12344444555555544444444443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.42  E-value=2.4  Score=34.08  Aligned_cols=101  Identities=21%  Similarity=0.152  Sum_probs=75.1

Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHH
Q 027412           37 YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSA  116 (223)
Q Consensus        37 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  116 (223)
                      ..+.|+++.|.++..+..      +..-|..|.++....+++..|.+.|.+..         -|..|+-.+...|+.+..
T Consensus       647 al~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~---------d~~~LlLl~t~~g~~~~l  711 (794)
T KOG0276|consen  647 ALKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRAR---------DLGSLLLLYTSSGNAEGL  711 (794)
T ss_pred             hhhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhc---------chhhhhhhhhhcCChhHH
Confidence            456789999988876653      66779999999999999999999987653         345677777888887776


Q ss_pred             HHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412          117 FDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      ..+-....+.| ..|..     ..+|...|+++++.+++.+-
T Consensus       712 ~~la~~~~~~g-~~N~A-----F~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  712 AVLASLAKKQG-KNNLA-----FLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHHHHHHhhc-ccchH-----HHHHHHcCCHHHHHHHHHhc
Confidence            66666666666 44332     23466789999998887644

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.36  E-value=1.9  Score=30.00  Aligned_cols=152  Identities=18%  Similarity=0.133  Sum_probs=81.6

Q ss_pred             HHHHHHHHHHHhhCCCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHH
Q 027412            8 LDAALKLFGQLTDRGLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFS   86 (223)
Q Consensus         8 ~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   86 (223)
                      +.-|+-=|.+....  .|+ +.+||.+.-.+...|+++.|.+.|+...+.++.-+-...|.-+..| -.|+++.|.+-+-
T Consensus        81 ~~LAR~DftQaLai--~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~Y-Y~gR~~LAq~d~~  157 (297)
T COG4785          81 RALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALY-YGGRYKLAQDDLL  157 (297)
T ss_pred             HHHHhhhhhhhhhc--CCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeee-ecCchHhhHHHHH
Confidence            33344444444443  444 6788988888899999999999999998875443333333222222 2355555555444


Q ss_pred             HHHhcCCC-ccHHHH--------------HHHHHHHHhhCChh-------------HHHHHHHHHHHCCCCC-------C
Q 027412           87 KMLEKGPK-ANVVTY--------------SCLIDGYFKSQNMK-------------SAFDVYEEMCENNISP-------N  131 (223)
Q Consensus        87 ~~~~~~~~-~~~~~~--------------~~l~~~~~~~~~~~-------------~a~~~~~~~~~~~~~~-------~  131 (223)
                      +.-+.++. |-...|              ..+..-+....+-.             ....+++.+.... ..       -
T Consensus       158 ~fYQ~D~~DPfR~LWLYl~E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yLgkiS~e~l~~~~~a~a-~~n~~~Ae~L  236 (297)
T COG4785         158 AFYQDDPNDPFRSLWLYLNEQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYLGKISEETLMERLKADA-TDNTSLAEHL  236 (297)
T ss_pred             HHHhcCCCChHHHHHHHHHHhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHHhhccHHHHHHHHHhhc-cchHHHHHHH
Confidence            44333222 111111              11222111111100             0112223322211 11       1


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412          132 IVSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus       132 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      ..||--+..-+...|+.++|..+|+-....++
T Consensus       237 TEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         237 TETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            35677788889999999999999998876543

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=93.34  E-value=1.6  Score=30.29  Aligned_cols=76  Identities=12%  Similarity=0.087  Sum_probs=54.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC--CCCChhHHHHHHHH
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN--ISPNIVSYSILIDG  141 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~  141 (223)
                      .+..+..+.+.+...+++...++-.+..|. +...-..++..++-.|+|++|..-++-.-...  ..+-..+|..++.+
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            344566677788999999998888777665 66777778899999999999998887766532  12234455555544

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.34  E-value=2  Score=30.21  Aligned_cols=132  Identities=14%  Similarity=0.079  Sum_probs=69.6

Q ss_pred             HHHHhcCchhHHHHHHHHHHh----CCCCCcHH-HHHHHHHHHHhcCChhHHHHHHHHHHhcCCC-----ccHHHHHHHH
Q 027412           35 CGYCSLNRLDEAVQLFEKLTC----VQLKPNSI-TFTILIDAFCKEGRMDDATMMFSKMLEKGPK-----ANVVTYSCLI  104 (223)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~  104 (223)
                      +.|--.++|..|-..|.+..+    .|.+.|.. +|.....+| +..++++|.+.++..++.-..     .-...+-.+.
T Consensus        42 n~yklaK~w~~AG~aflkaA~~h~k~~skhDaat~YveA~~cy-kk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~ia  120 (288)
T KOG1586|consen   42 NMYKLAKNWSAAGDAFLKAADLHLKAGSKHDAATTYVEAANCY-KKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIA  120 (288)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHh-hccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHH
Confidence            334444455555555544422    23333433 444444444 455777777777665543111     1112223355


Q ss_pred             HHHHhh-CChhHHHHHHHHHHHC--CCCCCh---hHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 027412          105 DGYFKS-QNMKSAFDVYEEMCEN--NISPNI---VSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDV  167 (223)
Q Consensus       105 ~~~~~~-~~~~~a~~~~~~~~~~--~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  167 (223)
                      ..|-.. .++++|+..|+..-+-  |-..+.   ..+.-+...-...+++.+|+.+|++........+.
T Consensus       121 EiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~L  189 (288)
T KOG1586|consen  121 EIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNL  189 (288)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchH
Confidence            555443 6778888888876542  111111   22333344455678999999999988776554333

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.17  E-value=0.041  Score=35.30  Aligned_cols=85  Identities=15%  Similarity=0.181  Sum_probs=56.1

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC
Q 027412           32 TIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ  111 (223)
Q Consensus        32 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  111 (223)
                      .++..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++..       +..-...++..|.+.|
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            345666677788888888888887665567788888888888887777777777621       1122244566666666


Q ss_pred             ChhHHHHHHHHH
Q 027412          112 NMKSAFDVYEEM  123 (223)
Q Consensus       112 ~~~~a~~~~~~~  123 (223)
                      .++++.-++.++
T Consensus        85 l~~~a~~Ly~~~   96 (143)
T PF00637_consen   85 LYEEAVYLYSKL   96 (143)
T ss_dssp             SHHHHHHHHHCC
T ss_pred             hHHHHHHHHHHc
Confidence            666666666543

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.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=93.05  E-value=0.96  Score=28.21  Aligned_cols=44  Identities=5%  Similarity=0.028  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412          116 AFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       116 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      ..+-+..+..-++-|++.+...-++++.+.+|+..|.++|+-.+
T Consensus        68 vrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK  111 (149)
T KOG4077|consen   68 VRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIK  111 (149)
T ss_pred             HHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            33344444444555555555555555555555555555555544

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.04  E-value=2.2  Score=29.96  Aligned_cols=96  Identities=10%  Similarity=0.061  Sum_probs=51.8

Q ss_pred             HHhhCChhHHHHHHHHHHHC----C-CCCChhHHHHHHHHHHhc-CCHHHHHHHHHHHHhC--CCCCCH---HHHHHHHH
Q 027412          107 YFKSQNMKSAFDVYEEMCEN----N-ISPNIVSYSILIDGLCKR-GLMEEALYAFHCALDN--HLLPDV---VTYAILIR  175 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~--~~~~~~---~~~~~l~~  175 (223)
                      |.+..++++|...++..++.    | +..-...+..+...|-.- .++++|+..|+..-+.  |-..+.   ..+.-+..
T Consensus        83 cykk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~  162 (288)
T KOG1586|consen   83 CYKKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQ  162 (288)
T ss_pred             HhhccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHH
Confidence            34444677666666655532    1 000111222344444443 6777777777766542  111122   22333344


Q ss_pred             HHHhcCCcchHHHHHHHHHHCCCCCch
Q 027412          176 GYCKAGRPTEAMQLYDSMLRNGIMPDG  202 (223)
Q Consensus       176 ~~~~~g~~~~a~~~~~~~~~~~~~p~~  202 (223)
                      .-...+++.+|+.+|++.....+..+.
T Consensus       163 yaa~leqY~~Ai~iyeqva~~s~~n~L  189 (288)
T KOG1586|consen  163 YAAQLEQYSKAIDIYEQVARSSLDNNL  189 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccchH
Confidence            456778999999999999876554443

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=92.75  E-value=0.28  Score=21.97  Aligned_cols=18  Identities=28%  Similarity=0.230  Sum_probs=7.1

Q ss_pred             HHHhcCCHHHHHHHHHHH
Q 027412          141 GLCKRGLMEEALYAFHCA  158 (223)
Q Consensus       141 ~~~~~~~~~~a~~~~~~~  158 (223)
                      ++.+.|++++|.+.|+++
T Consensus         9 ~~~~~g~~~~A~~~~~~~   26 (33)
T PF13174_consen    9 CYYKLGDYDEAIEYFQRL   26 (33)
T ss_dssp             HHHHHCHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHH
Confidence            333334444444444333

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=92.59  E-value=1.7  Score=34.77  Aligned_cols=98  Identities=12%  Similarity=0.047  Sum_probs=48.1

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      .|+...|...+....-..+.-..+..-.|.+...+.|-...|..++.+..... ...+-++..+.+++.-..+++.|++.
T Consensus       620 ~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~l~l~~i~~a~~~  698 (886)
T KOG4507|consen  620 VGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAYLALKNISGALEA  698 (886)
T ss_pred             cCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhHHHHhhhHHHHHH
Confidence            35555555555554332211122223344444555555555555555554443 22334455556666666666666666


Q ss_pred             HHHHHhcCCCccHHHHHHHH
Q 027412           85 FSKMLEKGPKANVVTYSCLI  104 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~  104 (223)
                      |++..+..+. +...-+.|.
T Consensus       699 ~~~a~~~~~~-~~~~~~~l~  717 (886)
T KOG4507|consen  699 FRQALKLTTK-CPECENSLK  717 (886)
T ss_pred             HHHHHhcCCC-ChhhHHHHH
Confidence            6666555443 444444443

>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=92.58  E-value=2.1  Score=28.42  Aligned_cols=135  Identities=12%  Similarity=0.111  Sum_probs=86.6

Q ss_pred             HHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 027412           12 LKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (223)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   91 (223)
                      .+.++.+.+.+++|+...+..+++.+.+.|++.....++    ..++-+|.......+-.+.  +....+.++--+|..+
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qll----q~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLL----QYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH----hhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH
Confidence            455666777899999999999999999999877655444    4444555554443333332  2334455554455443


Q ss_pred             CCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           92 GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        92 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                       .   ...+..++..+...|++-+|.++.+.....+    ......++.+..+.+|...-..+++-..+
T Consensus        88 -L---~~~~~~iievLL~~g~vl~ALr~ar~~~~~~----~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   88 -L---GTAYEEIIEVLLSKGQVLEALRYARQYHKVD----SVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             -h---hhhHHHHHHHHHhCCCHHHHHHHHHHcCCcc----cCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             0   1245667788999999999999998754322    22234566777777776665555554444

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=92.51  E-value=1.9  Score=29.90  Aligned_cols=52  Identities=12%  Similarity=0.120  Sum_probs=27.6

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHh
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTC   55 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   55 (223)
                      .+.+++++|+...+.-.+.. +.+...-..+++.++-.|+|++|..-++-.-+
T Consensus        12 L~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~   63 (273)
T COG4455          12 LDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAAT   63 (273)
T ss_pred             HHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhh
Confidence            34555666666555544442 22344445555666666666666555554443

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=92.50  E-value=3.4  Score=30.76  Aligned_cols=117  Identities=15%  Similarity=0.143  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh---cCCHHHHHHHHH
Q 027412           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK---RGLMEEALYAFH  156 (223)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~  156 (223)
                      .-+.++++.++.++. +...+..++..+.+..+.++..+-++++.... +-+...|...+.....   .-.++....+|.
T Consensus        49 ~klsilerAL~~np~-~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~-~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~  126 (321)
T PF08424_consen   49 RKLSILERALKHNPD-SERLLLGYLEEGEKVWDSEKLAKKWEELLFKN-PGSPELWREYLDFRQSNFASFTVSDVRDVYE  126 (321)
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHhccCcHHHHHHHHH
Confidence            344455555555443 55555555555555555555555566555542 3344555555444433   223444444444


Q ss_pred             HHHhC------CC------CCC-----HHHHHHHHHHHHhcCCcchHHHHHHHHHHCCC
Q 027412          157 CALDN------HL------LPD-----VVTYAILIRGYCKAGRPTEAMQLYDSMLRNGI  198 (223)
Q Consensus       157 ~~~~~------~~------~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  198 (223)
                      +.++.      +.      .++     ...+..+...+...|..+.|..+++-+++.++
T Consensus       127 ~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~E~Ava~~Qa~lE~n~  185 (321)
T PF08424_consen  127 KCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYTERAVALWQALLEFNF  185 (321)
T ss_pred             HHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHc
Confidence            33311      10      001     12233334445677888888888888887754

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.47  E-value=6.1  Score=33.64  Aligned_cols=187  Identities=20%  Similarity=0.193  Sum_probs=110.3

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCC--CCC-cHHHHHHHHHHHHhcCCh--hHHHHHHHHHHhcCCCccHHHHHH-
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQ--LKP-NSITFTILIDAFCKEGRM--DDATMMFSKMLEKGPKANVVTYSC-  102 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~-~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~-  102 (223)
                      -|..|+..|...|+.++|++++.+.....  ..+ -...+..++....+.+..  +...++-+.....++......+.. 
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~~p~~gi~Ift~~  585 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYADWVLNKNPEAGIQIFTSE  585 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhhhhhccCchhheeeeecc
Confidence            47889999999999999999999987632  011 112233355555555544  556666666555443322222211 


Q ss_pred             -----------HHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC--------HHHHHHH-----HHHH
Q 027412          103 -----------LIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL--------MEEALYA-----FHCA  158 (223)
Q Consensus       103 -----------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--------~~~a~~~-----~~~~  158 (223)
                                 .+-.|.....++.+..+++.+....-.++....+.++..|...=+        -+++.+.     +..+
T Consensus       586 ~~~~~~sis~~~Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e~v~~~~~~~~kg~e~~E~~~rekl~~~  665 (877)
T KOG2063|consen  586 DKQEAESISRDDVLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLEKVLEQASTDGKGEEAPETTVREKLLDF  665 (877)
T ss_pred             ChhhhccCCHHHHHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHHHHhhccCchhccccchhhhHHHHHHHH
Confidence                       233456677888899999999876555677777888777764311        1122222     1112


Q ss_pred             Hh--CCCCC--------CHHHHHHHHHHHHhcCCcchHHHHHHHHHHC-------------CCCCchhhHHHHhhhHhhc
Q 027412          159 LD--NHLLP--------DVVTYAILIRGYCKAGRPTEAMQLYDSMLRN-------------GIMPDGLLLSTLADYNLQS  215 (223)
Q Consensus       159 ~~--~~~~~--------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------------~~~p~~~~~~~l~~~~~~~  215 (223)
                      ++  ....|        ....|....-.+.+.|+.++|+.++-..+..             ...++...|..+++.+...
T Consensus       666 l~~s~~Y~p~~~L~~~~~~~l~ee~aill~rl~khe~aL~Iyv~~L~d~~~A~~Yc~~~y~~~~~~~~~y~~lL~~~l~~  745 (877)
T KOG2063|consen  666 LESSDLYDPQLLLERLNGDELYEERAILLGRLGKHEEALHIYVHELDDIDAAESYCLPQYESDKTNKEIYLTLLRIYLNP  745 (877)
T ss_pred             hhhhcccCcchhhhhccchhHHHHHHHHHhhhhhHHHHHHHHHHHhcchhHHHHHHHHhccCCCcccHHHHHHHHHHhcc
Confidence            21  11112        2234444444455888899988888766541             1234667788888877655

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.43  E-value=1.4  Score=26.31  Aligned_cols=47  Identities=15%  Similarity=0.136  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 027412           45 EAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (223)
Q Consensus        45 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   91 (223)
                      +..+-++.+......|++.+....+++|.+.+++..|+++|+-++.+
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            45555566666666667777777777777777777777777666554

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 ....

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=92.42  E-value=6  Score=33.40  Aligned_cols=196  Identities=13%  Similarity=0.076  Sum_probs=108.7

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcC-------HHHHHHHHH-HHHhcCchhHHHHHHHHHHhC----CCCCcHHHHHHHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPD-------IITYNTIIC-GYCSLNRLDEAVQLFEKLTCV----QLKPNSITFTILIDA   71 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~-------~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~   71 (223)
                      ...++++|..++.++...-..|+       ...++.+-. +....|+++.|.++.+.....    ...+....+..+..+
T Consensus       427 s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a  506 (894)
T COG2909         427 SQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEA  506 (894)
T ss_pred             HccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHH
Confidence            45678888888888765422222       123444332 334567888888888776543    233355667778888


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCccH---HHHHHH--HHHHHhhCChhH--HHHHHHHHHHC---CCC---CChhHHHHH
Q 027412           72 FCKEGRMDDATMMFSKMLEKGPKANV---VTYSCL--IDGYFKSQNMKS--AFDVYEEMCEN---NIS---PNIVSYSIL  138 (223)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l--~~~~~~~~~~~~--a~~~~~~~~~~---~~~---~~~~~~~~l  138 (223)
                      ..-.|++++|..+..+..+....-+.   ..|..+  ...+...|+...  ....+......   ..+   +-..++..+
T Consensus       507 ~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~l  586 (894)
T COG2909         507 AHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQL  586 (894)
T ss_pred             HHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHH
Confidence            88899999999988777665222232   233333  234555663332  22223222211   111   123345555


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHhCCCCCCHHH--HHHHHHHHHhcCCcchHHHHHHHHHHCCCC
Q 027412          139 IDGLCKR-GLMEEALYAFHCALDNHLLPDVVT--YAILIRGYCKAGRPTEAMQLYDSMLRNGIM  199 (223)
Q Consensus       139 ~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  199 (223)
                      ..++.+. +...++...++-.......|-...  +..|+......|+.++|...+.++......
T Consensus       587 l~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~  650 (894)
T COG2909         587 LRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLN  650 (894)
T ss_pred             HHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcC
Confidence            5555552 222233333333323333222222  247888899999999999999988865333

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=92.33  E-value=3.3  Score=30.18  Aligned_cols=190  Identities=14%  Similarity=0.039  Sum_probs=127.0

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----c
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----E   75 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~   75 (223)
                      ..+++..+...+......+   +......+...|..    ..+..+|..+|....+.|   .......|...|..    .
T Consensus        53 ~~~~~~~a~~~~~~a~~~~---~~~a~~~l~~~y~~g~gv~~~~~~A~~~~~~~a~~g---~~~a~~~lg~~~~~G~gv~  126 (292)
T COG0790          53 YPPDYAKALKSYEKAAELG---DAAALALLGQMYGAGKGVSRDKTKAADWYRCAAADG---LAEALFNLGLMYANGRGVP  126 (292)
T ss_pred             ccccHHHHHHHHHHhhhcC---ChHHHHHHHHHHHhccCccccHHHHHHHHHHHhhcc---cHHHHHhHHHHHhcCCCcc
Confidence            4567788888888877643   22444555555544    346788999999877665   33444456666665    4


Q ss_pred             CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC-------ChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh----
Q 027412           76 GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ-------NMKSAFDVYEEMCENNISPNIVSYSILIDGLCK----  144 (223)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----  144 (223)
                      .+..+|...+++....|..+...+...+...|....       +...|...+.++...+   +......+...|..    
T Consensus       127 ~d~~~A~~~~~~Aa~~g~~~a~~~~~~l~~~~~~g~~~~~~~~~~~~A~~~~~~aa~~~---~~~a~~~lg~~y~~G~Gv  203 (292)
T COG0790         127 LDLVKALKYYEKAAKLGNVEAALAMYRLGLAYLSGLQALAVAYDDKKALYLYRKAAELG---NPDAQLLLGRMYEKGLGV  203 (292)
T ss_pred             cCHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHcChhhhcccHHHHhHHHHHHHHHHhc---CHHHHHHHHHHHHcCCCC
Confidence            488999999999999886643233444555555431       2347889999888876   45566666666644    


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---------------CcchHHHHHHHHHHCCCCCchhhHH
Q 027412          145 RGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG---------------RPTEAMQLYDSMLRNGIMPDGLLLS  206 (223)
Q Consensus       145 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---------------~~~~a~~~~~~~~~~~~~p~~~~~~  206 (223)
                      ..++.+|..+|....+.|.   ......+. .+...|               +...|...+......|.........
T Consensus       204 ~~d~~~A~~wy~~Aa~~g~---~~a~~~~~-~~~~~g~g~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  276 (292)
T COG0790         204 PRDLKKAFRWYKKAAEQGD---GAACYNLG-LMYLNGEGVKKAAFLTAAKEEDKKQALEWLQKACELGFDNACEALR  276 (292)
T ss_pred             CcCHHHHHHHHHHHHHCCC---HHHHHHHH-HHHhcCCCchhhhhcccccCCCHHHHHHHHHHHHHcCChhHHHHHH
Confidence            3488999999999988875   33333333 444444               7778888888888887766666666

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.33  E-value=4.5  Score=32.66  Aligned_cols=133  Identities=16%  Similarity=0.079  Sum_probs=92.1

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHH
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (223)
                      ...+.++..+.+.|-.++|+++         .+|+...   .....+.|+++.|.++..+..      +..-|..|..+.
T Consensus       615 ~~rt~va~Fle~~g~~e~AL~~---------s~D~d~r---Felal~lgrl~iA~~la~e~~------s~~Kw~~Lg~~a  676 (794)
T KOG0276|consen  615 EIRTKVAHFLESQGMKEQALEL---------STDPDQR---FELALKLGRLDIAFDLAVEAN------SEVKWRQLGDAA  676 (794)
T ss_pred             hhhhhHHhHhhhccchHhhhhc---------CCChhhh---hhhhhhcCcHHHHHHHHHhhc------chHHHHHHHHHH
Confidence            3566777777777777777654         2333221   233456799999988876642      677899999999


Q ss_pred             HhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHH
Q 027412          108 FKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAM  187 (223)
Q Consensus       108 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  187 (223)
                      .+.+++..|.+.|.....         |..|+..+...|+-+....+-....+.|. .|.     ...+|...|+++++.
T Consensus       677 l~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~-~N~-----AF~~~~l~g~~~~C~  741 (794)
T KOG0276|consen  677 LSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK-NNL-----AFLAYFLSGDYEECL  741 (794)
T ss_pred             hhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc-cch-----HHHHHHHcCCHHHHH
Confidence            999999999999987654         44566677778887766666666666664 232     233556678888888


Q ss_pred             HHHHHH
Q 027412          188 QLYDSM  193 (223)
Q Consensus       188 ~~~~~~  193 (223)
                      +++.+-
T Consensus       742 ~lLi~t  747 (794)
T KOG0276|consen  742 ELLIST  747 (794)
T ss_pred             HHHHhc
Confidence            777554

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=92.11  E-value=0.35  Score=20.65  Aligned_cols=14  Identities=29%  Similarity=0.195  Sum_probs=5.4

Q ss_pred             HHHHhcCCHHHHHH
Q 027412          140 DGLCKRGLMEEALY  153 (223)
Q Consensus       140 ~~~~~~~~~~~a~~  153 (223)
                      .++...|++++|..
T Consensus         9 ~~~~~~G~~~eA~~   22 (26)
T PF07721_consen    9 RALLAQGDPDEAER   22 (26)
T ss_pred             HHHHHcCCHHHHHH
Confidence            33333344333333

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

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=91.84  E-value=3.8  Score=29.86  Aligned_cols=26  Identities=38%  Similarity=0.625  Sum_probs=14.0

Q ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          170 YAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       170 ~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      ++.....|..+|.+.+|.++.++..+
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~lt  307 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALT  307 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhh
Confidence            34444555555555555555555554

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.78  E-value=4.3  Score=30.36  Aligned_cols=66  Identities=15%  Similarity=0.073  Sum_probs=52.6

Q ss_pred             CChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          130 PNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLP---DVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       130 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      ....++..++..+.+.|.++.|...+.++...+...   .+.....-++.....|+..+|+..+++..+
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            445678889999999999999999999988754211   345556667778888999999999988887

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=91.68  E-value=3.8  Score=29.59  Aligned_cols=89  Identities=15%  Similarity=0.079  Sum_probs=46.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh--
Q 027412           67 ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK--  144 (223)
Q Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  144 (223)
                      .=|++++..++|.++....-+--+.--+.-+.....-|-.|.+.+++..+.++-..-....-.-+..-|..++..|..  
T Consensus        88 vGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~V  167 (309)
T PF07163_consen   88 VGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHV  167 (309)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHH
Confidence            345667777777776655443332211112233444455566777777666665554432111222335555555443  


Q ss_pred             ---cCCHHHHHHHH
Q 027412          145 ---RGLMEEALYAF  155 (223)
Q Consensus       145 ---~~~~~~a~~~~  155 (223)
                         .|.+++|.++.
T Consensus       168 LlPLG~~~eAeelv  181 (309)
T PF07163_consen  168 LLPLGHFSEAEELV  181 (309)
T ss_pred             HhccccHHHHHHHH
Confidence               47777777666

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

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=91.52  E-value=0.79  Score=22.69  Aligned_cols=23  Identities=26%  Similarity=0.473  Sum_probs=11.4

Q ss_pred             HHHHHHhhCChhHHHHHHHHHHH
Q 027412          103 LIDGYFKSQNMKSAFDVYEEMCE  125 (223)
Q Consensus       103 l~~~~~~~~~~~~a~~~~~~~~~  125 (223)
                      +..+|...|+.+.|..++++...
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            44445555555555555554443

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.47  E-value=3.2  Score=28.25  Aligned_cols=93  Identities=18%  Similarity=0.189  Sum_probs=69.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCcc--HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc
Q 027412           68 LIDAFCKEGRMDDATMMFSKMLEKGPKAN--VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR  145 (223)
Q Consensus        68 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  145 (223)
                      +...+...+++++|+..++.........+  ..+-..|.+.....|.+++|+..++.....+  ........-...+...
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~--w~~~~~elrGDill~k  172 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEES--WAAIVAELRGDILLAK  172 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccccc--HHHHHHHHhhhHHHHc
Confidence            45567789999999999998775422111  1222336777889999999999998876653  2344455667889999


Q ss_pred             CCHHHHHHHHHHHHhCC
Q 027412          146 GLMEEALYAFHCALDNH  162 (223)
Q Consensus       146 ~~~~~a~~~~~~~~~~~  162 (223)
                      |+-++|+.-|+...+.+
T Consensus       173 g~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         173 GDKQEARAAYEKALESD  189 (207)
T ss_pred             CchHHHHHHHHHHHHcc
Confidence            99999999999998875

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=91.41  E-value=3.4  Score=32.45  Aligned_cols=110  Identities=19%  Similarity=0.120  Sum_probs=76.3

Q ss_pred             HHHHHhhCChhHHHHHHHHHH---HCCCCCC-----hhHHHHHHHHHHhcCCHHHHHHHHHHHHh-------CCCCCCH-
Q 027412          104 IDGYFKSQNMKSAFDVYEEMC---ENNISPN-----IVSYSILIDGLCKRGLMEEALYAFHCALD-------NHLLPDV-  167 (223)
Q Consensus       104 ~~~~~~~~~~~~a~~~~~~~~---~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~-  167 (223)
                      ...+.-.|++.+|.+++...-   ..|...+     -..+|.+...+.+.|.+..+..+|.+.++       .|++|.. 
T Consensus       247 sq~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~  326 (696)
T KOG2471|consen  247 SQLEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKT  326 (696)
T ss_pred             HHHHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcc
Confidence            455667899999988875432   1121112     22347777777888888888888877763       4544422 


Q ss_pred             ----------HHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhc
Q 027412          168 ----------VTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQS  215 (223)
Q Consensus       168 ----------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  215 (223)
                                .+|| ..-.|...|++-.|.+.|.+.... +..++..|..+..+|.-.
T Consensus       327 ~tls~nks~eilYN-cG~~~Lh~grPl~AfqCf~~av~v-fh~nPrlWLRlAEcCima  382 (696)
T KOG2471|consen  327 FTLSQNKSMEILYN-CGLLYLHSGRPLLAFQCFQKAVHV-FHRNPRLWLRLAECCIMA  382 (696)
T ss_pred             eehhcccchhhHHh-hhHHHHhcCCcHHHHHHHHHHHHH-HhcCcHHHHHHHHHHHHH
Confidence                      2333 345678899999999999998875 678889999999998754

>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=91.03  E-value=1  Score=25.53  Aligned_cols=46  Identities=17%  Similarity=0.135  Sum_probs=29.3

Q ss_pred             hcCchhHHHHHHHHHHhCCCCCc--HHHHHHHHHHHHhcCChhHHHHH
Q 027412           39 SLNRLDEAVQLFEKLTCVQLKPN--SITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus        39 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      ..++.++|+..+....+....+.  -.++..++.+|+..|++.+++.+
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56667777777777765533322  13556677777777777776655

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

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=90.78  E-value=1.4  Score=22.86  Aligned_cols=34  Identities=32%  Similarity=0.411  Sum_probs=15.6

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHH
Q 027412          173 LIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTL  208 (223)
Q Consensus       173 l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  208 (223)
                      +..++.+.|++++|.+..+.+++  +.|+......|
T Consensus         7 lAig~ykl~~Y~~A~~~~~~lL~--~eP~N~Qa~~L   40 (53)
T PF14853_consen    7 LAIGHYKLGEYEKARRYCDALLE--IEPDNRQAQSL   40 (53)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHH--HTTS-HHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHh--hCCCcHHHHHH
Confidence            33444555555555555555555  34554443333

>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=90.69  E-value=3.8  Score=29.19  Aligned_cols=79  Identities=13%  Similarity=0.105  Sum_probs=51.5

Q ss_pred             hHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc----C-CCccHHHHHHHHHHHHhhCChhHHHH
Q 027412           44 DEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK----G-PKANVVTYSCLIDGYFKSQNMKSAFD  118 (223)
Q Consensus        44 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~  118 (223)
                      ..|...|......  .......-.+..-|...|++++|.++|+.+...    | ..+...+...+..++.+.|+.+....
T Consensus       162 ~~A~~~f~~~~~~--R~~~~l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l~  239 (247)
T PF11817_consen  162 EKAYEQFKKYGQN--RMASYLSLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYLT  239 (247)
T ss_pred             HHHHHHHHHhccc--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            3455555544332  223344456778888899999999998887532    2 23445666778888888888888777


Q ss_pred             HHHHHH
Q 027412          119 VYEEMC  124 (223)
Q Consensus       119 ~~~~~~  124 (223)
                      +--++.
T Consensus       240 ~~leLl  245 (247)
T PF11817_consen  240 TSLELL  245 (247)
T ss_pred             HHHHHh
Confidence            655543

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.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.60  E-value=8.9  Score=31.85  Aligned_cols=79  Identities=13%  Similarity=0.034  Sum_probs=40.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhH
Q 027412          133 VSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN  212 (223)
Q Consensus       133 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  212 (223)
                      -+.+--+.-+...|+..+|.++-.+.+   + |+...|..-+.+++..++|++-+++-+...      ++.-|.-.+.+|
T Consensus       685 lSl~dTv~~li~~g~~k~a~ql~~~Fk---i-pdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c  754 (829)
T KOG2280|consen  685 LSLHDTVTTLILIGQNKRAEQLKSDFK---I-PDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEAC  754 (829)
T ss_pred             CcHHHHHHHHHHccchHHHHHHHHhcC---C-cchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHH
Confidence            344444555555566666665544332   2 566666666666666666665554443321      133444455555


Q ss_pred             hhcCCCccc
Q 027412          213 LQSSGSQEH  221 (223)
Q Consensus       213 ~~~~~~~~~  221 (223)
                      .+.|+..++
T Consensus       755 ~~~~n~~EA  763 (829)
T KOG2280|consen  755 LKQGNKDEA  763 (829)
T ss_pred             HhcccHHHH
Confidence            555554443

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=90.56  E-value=4.3  Score=32.69  Aligned_cols=87  Identities=18%  Similarity=0.082  Sum_probs=42.1

Q ss_pred             cCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHH
Q 027412           75 EGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYA  154 (223)
Q Consensus        75 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  154 (223)
                      .|+...|...+.......+.-..+....|.....+.|-...|-.++.+..... ...+-++..+.+++....+.+.|++.
T Consensus       620 ~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~l~l~~i~~a~~~  698 (886)
T KOG4507|consen  620 VGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAYLALKNISGALEA  698 (886)
T ss_pred             cCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhHHHHhhhHHHHHH
Confidence            45555555555444433332223333334444444455555555555554433 23334455555555555555555555


Q ss_pred             HHHHHhCC
Q 027412          155 FHCALDNH  162 (223)
Q Consensus       155 ~~~~~~~~  162 (223)
                      |+...+..
T Consensus       699 ~~~a~~~~  706 (886)
T KOG4507|consen  699 FRQALKLT  706 (886)
T ss_pred             HHHHHhcC
Confidence            55555443

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=90.30  E-value=5.5  Score=28.97  Aligned_cols=145  Identities=12%  Similarity=0.115  Sum_probs=97.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHh-cCCCccHHHHHHHHHHHHhhC--ChhHHHHHHHHHHHC-CCCCChhHHHHHHH
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLE-KGPKANVVTYSCLIDGYFKSQ--NMKSAFDVYEEMCEN-NISPNIVSYSILID  140 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~  140 (223)
                      |..|+.   .+....+|+++|+.... ..+-.|..+...+++......  ....-.++.+-+... +-.++..+...++.
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH
Confidence            544443   33456778888873322 123347777777777776522  222233333333322 34788889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHH-----HHCCCCCchhhHHHHhhhH
Q 027412          141 GLCKRGLMEEALYAFHCALDN-HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSM-----LRNGIMPDGLLLSTLADYN  212 (223)
Q Consensus       141 ~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-----~~~~~~p~~~~~~~l~~~~  212 (223)
                      .+++.++|.+-.++++..... ++..|...|..++......|+..-...+.++-     .+.|+..+...-..+-+.+
T Consensus       211 ~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            999999999999999987765 66678999999999999999988777766542     2446666666555554444

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.25  E-value=5.4  Score=28.82  Aligned_cols=191  Identities=13%  Similarity=0.134  Sum_probs=118.2

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCH---HHHHHHHHHHHhcCchhHHHHHHHHHHhC---CC--CCcHHHHHHHHHHHHhc
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDI---ITYNTIICGYCSLNRLDEAVQLFEKLTCV---QL--KPNSITFTILIDAFCKE   75 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~--~~~~~~~~~l~~~~~~~   75 (223)
                      +...+++|+.-|.+..+.......   .+...++....+.+++++....|.++...   .+  .-+....|++++.-+..
T Consensus        39 ~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS  118 (440)
T KOG1464|consen   39 KEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTS  118 (440)
T ss_pred             cccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhh
Confidence            345789999999998876333333   34556788999999999999988887532   11  22445667777766666


Q ss_pred             CChhHHHHHHHHHHhc-----CCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC----C-------CChhHHHHHH
Q 027412           76 GRMDDATMMFSKMLEK-----GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI----S-------PNIVSYSILI  139 (223)
Q Consensus        76 ~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~-------~~~~~~~~l~  139 (223)
                      .+.+.-..+++.....     +-..--.|-..|...|...+++.+...+++++...--    .       .-..+|..=|
T Consensus       119 ~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEI  198 (440)
T KOG1464|consen  119 KNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEI  198 (440)
T ss_pred             hhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHh
Confidence            6655544444433221     1111122345678888889999988888888864310    1       1134667777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHH----HHhcCCcchHHHHHHHHH
Q 027412          140 DGLCKRGLMEEALYAFHCALDN-HLLPDVVTYAILIRG----YCKAGRPTEAMQLYDSML  194 (223)
Q Consensus       140 ~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~----~~~~g~~~~a~~~~~~~~  194 (223)
                      +.|..+.+-.+...++++.+.. .--|.+.....+-.+    ..+.|++++|..-|-+.-
T Consensus       199 QmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTDFFEAF  258 (440)
T KOG1464|consen  199 QMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEAF  258 (440)
T ss_pred             hhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhHHHHHH
Confidence            8888888777777888876532 122555444333222    346677887766554443

>smart00028 TPR Tetratricopeptide repeats

Probab=90.22  E-value=0.72  Score=19.75  Aligned_cols=18  Identities=28%  Similarity=0.628  Sum_probs=6.8

Q ss_pred             HHHHhhCChhHHHHHHHH
Q 027412          105 DGYFKSQNMKSAFDVYEE  122 (223)
Q Consensus       105 ~~~~~~~~~~~a~~~~~~  122 (223)
                      ..+...++++.|...++.
T Consensus         9 ~~~~~~~~~~~a~~~~~~   26 (34)
T smart00028        9 NAYLKLGDYDEALEYYEK   26 (34)
T ss_pred             HHHHHHhhHHHHHHHHHH
Confidence            333333333333333333

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=90.10  E-value=3.6  Score=26.58  Aligned_cols=63  Identities=14%  Similarity=0.044  Sum_probs=38.2

Q ss_pred             HHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCC
Q 027412           14 LFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR   77 (223)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   77 (223)
                      +.+.+.+.|+++++. -..++..+...++.-.|.++++.+.+.++..+..|...-++.+...|-
T Consensus         8 ~~~~lk~~glr~T~q-R~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Gl   70 (145)
T COG0735           8 AIERLKEAGLRLTPQ-RLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGL   70 (145)
T ss_pred             HHHHHHHcCCCcCHH-HHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCC
Confidence            334455566665542 345566666666667777777777776666655555445566655554

>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=90.10  E-value=8.9  Score=36.21  Aligned_cols=118  Identities=11%  Similarity=0.098  Sum_probs=54.3

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhC-C-CCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh
Q 027412           32 TIICGYCSLNRLDEAVQLFEKLTCV-Q-LKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK  109 (223)
Q Consensus        32 ~l~~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  109 (223)
                      .+..+-.+.+.+.+|...+++-... . -......+..+...|...++++....+...-.   -  +...+. .+.....
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~---a--~~sl~~-qil~~e~ 1461 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRF---A--DPSLYQ-QILEHEA 1461 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhh---c--CccHHH-HHHHHHh
Confidence            3344455566666666666652100 0 01112223333336666666666555554310   1  112222 2333444


Q ss_pred             hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHH
Q 027412          110 SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFH  156 (223)
Q Consensus       110 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  156 (223)
                      .|+++.|...|+.+...+ ++....++.++..-...|.++......+
T Consensus      1462 ~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~d 1507 (2382)
T KOG0890|consen 1462 SGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLD 1507 (2382)
T ss_pred             hccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhc
Confidence            566666666666666553 3334445555554445555555444333

>PF09797 NatB_MDM20: N-acetyltransferase B complex (NatB) non catalytic subunit; InterPro: IPR019183 This is the non-catalytic subunit of the N-terminal acetyltransferase B complex (NatB)

Probab=90.00  E-value=7  Score=29.72  Aligned_cols=58  Identities=16%  Similarity=0.058  Sum_probs=38.6

Q ss_pred             hhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHH
Q 027412           43 LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYS  101 (223)
Q Consensus        43 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  101 (223)
                      +-+|..+++...... +.+...--.++..|...|-.+.|...|..+.-+.++.|...|.
T Consensus       199 l~~Ai~lLE~~l~~s-~~n~~~~LlLvrlY~~LG~~~~A~~~~~~L~iK~IQ~DTL~h~  256 (365)
T PF09797_consen  199 LLQAIALLEHALKKS-PHNYQLKLLLVRLYSLLGAGSLALEHYESLDIKNIQLDTLGHL  256 (365)
T ss_pred             HHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHhcChHHHHHHHhHHH
Confidence            346666777666554 3355666667788888888888888888776665655544444

The NatB complex catalyses the acetylation of the amino-terminal methionine residue of all proteins beginning with Met-Asp or Met-Glu and of some proteins beginning with Met-Asn or Met-Met. In Saccharomyces cerevisiae (Baker's yeast) this subunit is called MDM20 and in Schizosaccharomyces pombe (Fission yeast) it is called Arm1. NatB acetylates the Tpm1 protein and regulates and tropomyocin-actin interactions. This subunit is required by the NatB complex for the N-terminal acetylation of Tpm1 [].

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=89.92  E-value=2.8  Score=25.07  Aligned_cols=79  Identities=10%  Similarity=0.050  Sum_probs=40.8

Q ss_pred             chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHH
Q 027412           42 RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYE  121 (223)
Q Consensus        42 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  121 (223)
                      ..++|..+-+.+...+-. ...+--.-+..+.+.|++++|..+.+.+    +.||...|..|.  -.+.|..++....+.
T Consensus        20 cHqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALc--e~rlGl~s~l~~rl~   92 (115)
T TIGR02508        20 CHQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKL----CYPDLEPWLALC--EWRLGLGSALESRLN   92 (115)
T ss_pred             HHHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCC----CCchHHHHHHHH--HHhhccHHHHHHHHH
Confidence            345555555555433211 1112222233455667777776666554    456666665543  335555666666666


Q ss_pred             HHHHCC
Q 027412          122 EMCENN  127 (223)
Q Consensus       122 ~~~~~~  127 (223)
                      .+...|
T Consensus        93 rla~sg   98 (115)
T TIGR02508        93 RLAASG   98 (115)
T ss_pred             HHHhCC
Confidence            665555

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.

>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=89.86  E-value=2.2  Score=24.23  Aligned_cols=46  Identities=15%  Similarity=0.179  Sum_probs=25.0

Q ss_pred             hcCChhHHHHHHHHHHhcCCCcc--HHHHHHHHHHHHhhCChhHHHHH
Q 027412           74 KEGRMDDATMMFSKMLEKGPKAN--VVTYSCLIDGYFKSQNMKSAFDV  119 (223)
Q Consensus        74 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~  119 (223)
                      ...+.++|+..+....+.-..+.  -.++..++.+++..|++.+++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556666666666665533322  12445556666666666655544

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

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=89.73  E-value=5.6  Score=28.17  Aligned_cols=118  Identities=16%  Similarity=0.108  Sum_probs=74.9

Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCcH-HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChh
Q 027412           36 GYCSLNRLDEAVQLFEKLTCVQLKPNS-ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK  114 (223)
Q Consensus        36 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  114 (223)
                      .|.....++.|+..|.+.+..  .|+. ..|+.=+.++.+..+++.+..--.+.++..+. .+.....+..+......++
T Consensus        19 k~f~~k~y~~ai~~y~raI~~--nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N-~vk~h~flg~~~l~s~~~~   95 (284)
T KOG4642|consen   19 KCFIPKRYDDAIDCYSRAICI--NPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPN-LVKAHYFLGQWLLQSKGYD   95 (284)
T ss_pred             cccchhhhchHHHHHHHHHhc--CCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChH-HHHHHHHHHHHHHhhcccc
Confidence            355566788888877776655  4554 55667777888888888888777776665433 3334445667777888888


Q ss_pred             HHHHHHHHHHH----CCCCCChhHHHHHHHHHHhcCCHHHHHHHHH
Q 027412          115 SAFDVYEEMCE----NNISPNIVSYSILIDGLCKRGLMEEALYAFH  156 (223)
Q Consensus       115 ~a~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  156 (223)
                      +|+..+.+...    ..+++-......|..+--+.=...+..++.+
T Consensus        96 eaI~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~Q  141 (284)
T KOG4642|consen   96 EAIKVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRIRQ  141 (284)
T ss_pred             HHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHHHH
Confidence            89888887743    2334444455555554444444444444444

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.53  E-value=11  Score=31.43  Aligned_cols=146  Identities=16%  Similarity=0.182  Sum_probs=84.9

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCc---CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChh
Q 027412            3 IKECHLDAALKLFGQLTDRGLEP---DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD   79 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   79 (223)
                      .+.+.+++|++..+.....  .|   ........+..+...|++++|-...-.|..    -+..-|......+...++..
T Consensus       367 l~~k~yeeAl~~~k~~~~~--~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~g----n~~~eWe~~V~~f~e~~~l~  440 (846)
T KOG2066|consen  367 LEKKKYEEALDAAKASIGN--EERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLG----NNAAEWELWVFKFAELDQLT  440 (846)
T ss_pred             HHhhHHHHHHHHHHhccCC--ccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhc----chHHHHHHHHHHhccccccc
Confidence            4567788888877765543  33   244667778888888888888888887763    35556666666666665554


Q ss_pred             HHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHH------------------HHHCCCCCChhHHHHHHHH
Q 027412           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE------------------MCENNISPNIVSYSILIDG  141 (223)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~------------------~~~~~~~~~~~~~~~l~~~  141 (223)
                      ....++   -...+..++..|..++..+.. .+...-.++..+                  ..+ . .-+......|+..
T Consensus       441 ~Ia~~l---Pt~~~rL~p~vYemvLve~L~-~~~~~F~e~i~~Wp~~Lys~l~iisa~~~q~~q-~-Se~~~L~e~La~L  514 (846)
T KOG2066|consen  441 DIAPYL---PTGPPRLKPLVYEMVLVEFLA-SDVKGFLELIKEWPGHLYSVLTIISATEPQIKQ-N-SESTALLEVLAHL  514 (846)
T ss_pred             hhhccC---CCCCcccCchHHHHHHHHHHH-HHHHHHHHHHHhCChhhhhhhHHHhhcchHHHh-h-ccchhHHHHHHHH
Confidence            433222   111222455667766666665 222221111111                  000 0 1122344557888


Q ss_pred             HHhcCCHHHHHHHHHHHHh
Q 027412          142 LCKRGLMEEALYAFHCALD  160 (223)
Q Consensus       142 ~~~~~~~~~a~~~~~~~~~  160 (223)
                      |...+++.+|...+-.+.+
T Consensus       515 Yl~d~~Y~~Al~~ylklk~  533 (846)
T KOG2066|consen  515 YLYDNKYEKALPIYLKLQD  533 (846)
T ss_pred             HHHccChHHHHHHHHhccC
Confidence            8888999999888876643

>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=89.44  E-value=20  Score=34.23  Aligned_cols=146  Identities=13%  Similarity=0.145  Sum_probs=96.8

Q ss_pred             ccccCHHHHHHHHHHHhhCCC--CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH
Q 027412            3 IKECHLDAALKLFGQLTDRGL--EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      .+.+.+.+|+..++.-.....  ......+..+...|+..+++|....+......   .|+  .+. -+......|++..
T Consensus      1394 frc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a---~~s--l~~-qil~~e~~g~~~d 1467 (2382)
T KOG0890|consen 1394 FRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFA---DPS--LYQ-QILEHEASGNWAD 1467 (2382)
T ss_pred             HhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc---Ccc--HHH-HHHHHHhhccHHH
Confidence            356788899999888311110  12234455566699999999998888774221   222  233 3344556799999


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHH-HHHHHhcCCHHHHHHHHH
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSIL-IDGLCKRGLMEEALYAFH  156 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~  156 (223)
                      |...|+++.+.+++ ...+++-++......+.++......+-..... .+....++.+ +.+--+.+++|.......
T Consensus      1468 a~~Cye~~~q~~p~-~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~e~~l~ 1542 (2382)
T KOG0890|consen 1468 AAACYERLIQKDPD-KEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLLESYLS 1542 (2382)
T ss_pred             HHHHHHHhhcCCCc-cccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhhhhhhh
Confidence            99999999998765 57778888888888888888888776665442 3334444333 344456777777766654

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=89.44  E-value=1.1  Score=34.69  Aligned_cols=106  Identities=16%  Similarity=0.118  Sum_probs=66.6

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCH
Q 027412           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLM  148 (223)
Q Consensus        69 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  148 (223)
                      +..+...+.++.|+.++.+.++..+. ....|..-..++.+.+++..|+.=..++++.. +-....|.--..++.+.+.+
T Consensus        11 an~~l~~~~fd~avdlysKaI~ldpn-ca~~~anRa~a~lK~e~~~~Al~Da~kaie~d-P~~~K~Y~rrg~a~m~l~~~   88 (476)
T KOG0376|consen   11 ANEALKDKVFDVAVDLYSKAIELDPN-CAIYFANRALAHLKVESFGGALHDALKAIELD-PTYIKAYVRRGTAVMALGEF   88 (476)
T ss_pred             HhhhcccchHHHHHHHHHHHHhcCCc-ceeeechhhhhheeechhhhHHHHHHhhhhcC-chhhheeeeccHHHHhHHHH
Confidence            44555667888888888888886554 45555555678888888888888777777754 22233344444555566666


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 027412          149 EEALYAFHCALDNHLLPDVVTYAILIRGYC  178 (223)
Q Consensus       149 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  178 (223)
                      .+|...|+.....  .|+..-...++.-|-
T Consensus        89 ~~A~~~l~~~~~l--~Pnd~~~~r~~~Ec~  116 (476)
T KOG0376|consen   89 KKALLDLEKVKKL--APNDPDATRKIDECN  116 (476)
T ss_pred             HHHHHHHHHhhhc--CcCcHHHHHHHHHHH
Confidence            6777766665543  355555554444443

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=89.35  E-value=10  Score=30.57  Aligned_cols=186  Identities=10%  Similarity=-0.011  Sum_probs=114.4

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (223)
                      +...|...+..-...|+.+.+.-+|++..-- +..=...|-..+.-....|+.+-|..++....+...+..+.+-..-..
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            3567888888888899999999888887521 111223444455555556888888888877666544433443333344


Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHH---HHHHHHHhCCCCCCHHHHHHHHH-----HH
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEAL---YAFHCALDNHLLPDVVTYAILIR-----GY  177 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~---~~~~~~~~~~~~~~~~~~~~l~~-----~~  177 (223)
                      ..-..|++..|..+++.+.+.- +.-...-..-+....+.|..+.+.   .++........  +......+.-     .+
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~--~~~i~~~l~~~~~r~~~  451 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESEY-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKE--NNGILEKLYVKFARLRY  451 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhhC-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccccc--CcchhHHHHHHHHHHHH
Confidence            4556789999999999988763 333344444455666778888777   44433332211  2222222111     23


Q ss_pred             HhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcC
Q 027412          178 CKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSS  216 (223)
Q Consensus       178 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  216 (223)
                      .-.++.+.|..++.++.+. +.++...|..++..+....
T Consensus       452 ~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  452 KIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            4457888899999888875 4556666777776655444

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=89.32  E-value=6.7  Score=28.57  Aligned_cols=154  Identities=18%  Similarity=0.080  Sum_probs=99.5

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcC----
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG----   76 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----   76 (223)
                      ..+..+|.++|....+.|.   ......|...|..    ..+..+|..+|++..+.|..+-..+...+...|..-.    
T Consensus        90 ~~~~~~A~~~~~~~a~~g~---~~a~~~lg~~~~~G~gv~~d~~~A~~~~~~Aa~~g~~~a~~~~~~l~~~~~~g~~~~~  166 (292)
T COG0790          90 SRDKTKAADWYRCAAADGL---AEALFNLGLMYANGRGVPLDLVKALKYYEKAAKLGNVEAALAMYRLGLAYLSGLQALA  166 (292)
T ss_pred             cccHHHHHHHHHHHhhccc---HHHHHhHHHHHhcCCCcccCHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHcChhhhc
Confidence            3467889999997777653   3344556665655    4488999999999999885543333455555555431    


Q ss_pred             ---ChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh----hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC---
Q 027412           77 ---RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG---  146 (223)
Q Consensus        77 ---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---  146 (223)
                         +...|...+.+....+   +......+...|..    ..++++|..+|....+.|.   ......+. .+...|   
T Consensus       167 ~~~~~~~A~~~~~~aa~~~---~~~a~~~lg~~y~~G~Gv~~d~~~A~~wy~~Aa~~g~---~~a~~~~~-~~~~~g~g~  239 (292)
T COG0790         167 VAYDDKKALYLYRKAAELG---NPDAQLLLGRMYEKGLGVPRDLKKAFRWYKKAAEQGD---GAACYNLG-LMYLNGEGV  239 (292)
T ss_pred             ccHHHHhHHHHHHHHHHhc---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHH-HHHhcCCCc
Confidence               2347888888888776   44555556655543    3478899999999999873   33444444 444444   


Q ss_pred             ------------CHHHHHHHHHHHHhCCCCCCHH
Q 027412          147 ------------LMEEALYAFHCALDNHLLPDVV  168 (223)
Q Consensus       147 ------------~~~~a~~~~~~~~~~~~~~~~~  168 (223)
                                  +...|...+......+......
T Consensus       240 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  273 (292)
T COG0790         240 KKAAFLTAAKEEDKKQALEWLQKACELGFDNACE  273 (292)
T ss_pred             hhhhhcccccCCCHHHHHHHHHHHHHcCChhHHH
Confidence                        6666666666666655543333

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=89.19  E-value=6.2  Score=27.96  Aligned_cols=116  Identities=11%  Similarity=0.060  Sum_probs=77.8

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCH-HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHH-HHHHHHHHHHhcCChh
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDI-ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMD   79 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~   79 (223)
                      |.....++.|+..|.+.+..  .|+. .-|..=+-++.+..+|+.+..=-.+..+.  .|+.. ....+..+......++
T Consensus        20 ~f~~k~y~~ai~~y~raI~~--nP~~~~Y~tnralchlk~~~~~~v~~dcrralql--~~N~vk~h~flg~~~l~s~~~~   95 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAICI--NPTVASYYTNRALCHLKLKHWEPVEEDCRRALQL--DPNLVKAHYFLGQWLLQSKGYD   95 (284)
T ss_pred             ccchhhhchHHHHHHHHHhc--CCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhc--ChHHHHHHHHHHHHHHhhcccc
Confidence            44567789999988887766  5565 45677788888999999988777777655  45543 4445777778888999


Q ss_pred             HHHHHHHHHHhc----CCCccHHHHHHHHHHHHhhCChhHHHHHHH
Q 027412           80 DATMMFSKMLEK----GPKANVVTYSCLIDGYFKSQNMKSAFDVYE  121 (223)
Q Consensus        80 ~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  121 (223)
                      .|+..+.+....    .+.+....+..|..+--..-...+..++.+
T Consensus        96 eaI~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~Q  141 (284)
T KOG4642|consen   96 EAIKVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRIRQ  141 (284)
T ss_pred             HHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHHHH
Confidence            999998877432    344445566666655444333444444443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=89.08  E-value=4.5  Score=26.23  Aligned_cols=53  Identities=11%  Similarity=0.075  Sum_probs=29.2

Q ss_pred             hcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 027412           39 SLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKG   92 (223)
Q Consensus        39 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   92 (223)
                      ..++.+++..++..+.-..+. ....-..-...+...|+|.+|.++|+.+...+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~-~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPN-LKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCC-ccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            456667777777666554322 11222223334456677777777777766554

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=88.79  E-value=10  Score=29.97  Aligned_cols=66  Identities=14%  Similarity=0.036  Sum_probs=28.6

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC-CHHHHHHHHHHHHhCC
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG-LMEEALYAFHCALDNH  162 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~  162 (223)
                      |+..|...+..+-+.+.+.+.-.+|.+|.... |.++..|-....-....+ ..+.|..+|.+.++.+
T Consensus       104 D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~H-p~~~dLWI~aA~wefe~n~ni~saRalflrgLR~n  170 (568)
T KOG2396|consen  104 DVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKH-PNNPDLWIYAAKWEFEINLNIESARALFLRGLRFN  170 (568)
T ss_pred             CHHHHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCchhHHhhhhhHHhhccchHHHHHHHHHHhhcC
Confidence            44555555544444444555555555555432 333333333222222222 2455555554444433

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.32  E-value=1.1  Score=33.19  Aligned_cols=115  Identities=20%  Similarity=0.198  Sum_probs=69.7

Q ss_pred             hcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC-hhHHHHHHHHHHhcCCHHHHH
Q 027412           74 KEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN-IVSYSILIDGLCKRGLMEEAL  152 (223)
Q Consensus        74 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~  152 (223)
                      ..|.++.|++.|...+..++. ....|..-..++.+.+.+..|++=+......+  || ..-|-.-..+..-.|+|++|.
T Consensus       126 n~G~~~~ai~~~t~ai~lnp~-~a~l~~kr~sv~lkl~kp~~airD~d~A~ein--~Dsa~~ykfrg~A~rllg~~e~aa  202 (377)
T KOG1308|consen  126 NDGEFDTAIELFTSAIELNPP-LAILYAKRASVFLKLKKPNAAIRDCDFAIEIN--PDSAKGYKFRGYAERLLGNWEEAA  202 (377)
T ss_pred             cCcchhhhhcccccccccCCc-hhhhcccccceeeeccCCchhhhhhhhhhccC--cccccccchhhHHHHHhhchHHHH
Confidence            456777777777777776553 66666666777777888888887777777643  33 233444444455567888888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          153 YAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                      ..+....+.+..+....  .+-...-+.+..++-...+++.
T Consensus       203 ~dl~~a~kld~dE~~~a--~lKeV~p~a~ki~e~~~k~er~  241 (377)
T KOG1308|consen  203 HDLALACKLDYDEANSA--TLKEVFPNAGKIEEHRRKYERA  241 (377)
T ss_pred             HHHHHHHhccccHHHHH--HHHHhccchhhhhhchhHHHHH
Confidence            88887777765443332  2333333444444444444433

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=88.22  E-value=3.9  Score=24.49  Aligned_cols=51  Identities=18%  Similarity=0.191  Sum_probs=22.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          140 DGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       140 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      ..+.++|+|++|..+.+..    ..||...|..+..  .+.|-.+++..-+.+|...
T Consensus        47 sSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        47 SSLMNRGDYQSALQLGNKL----CYPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHHHccchHHHHHHhcCCC----CCchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            3344555555555544322    2345544444322  2444444444444444443

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.

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=88.20  E-value=9  Score=28.59  Aligned_cols=146  Identities=14%  Similarity=0.094  Sum_probs=97.6

Q ss_pred             HHHHhhCCCCcCHHHHHHHHHHHHhcC------------chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412           15 FGQLTDRGLEPDIITYNTIICGYCSLN------------RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus        15 ~~~~~~~~~~~~~~~~~~l~~~~~~~~------------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      |++..+.. +-|..+|..++..--..-            -.+.-+.+++++.+.++ .+......++..+.+..+.++..
T Consensus         8 l~~~v~~~-P~di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~np-~~~~L~l~~l~~~~~~~~~~~l~   85 (321)
T PF08424_consen    8 LNRRVREN-PHDIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHNP-DSERLLLGYLEEGEKVWDSEKLA   85 (321)
T ss_pred             HHHHHHhC-cccHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCCHHHHH
Confidence            33444433 447888888875333221            24566788899887754 47778888899999999999999


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHh---hCChhHHHHHHHHHHHC------CC----CCC-------hhHHHHHHHHH
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFK---SQNMKSAFDVYEEMCEN------NI----SPN-------IVSYSILIDGL  142 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~------~~----~~~-------~~~~~~l~~~~  142 (223)
                      +.++++....+. +...|...+.....   .-.++....+|.+....      +.    .+.       ..++..+....
T Consensus        86 ~~we~~l~~~~~-~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl  164 (321)
T PF08424_consen   86 KKWEELLFKNPG-SPELWREYLDFRQSNFASFTVSDVRDVYEKCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFL  164 (321)
T ss_pred             HHHHHHHHHCCC-ChHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHH
Confidence            999999998766 78888887776654   23455666666554421      11    011       11233344445


Q ss_pred             HhcCCHHHHHHHHHHHHhCCC
Q 027412          143 CKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      ...|..+.|..+++.+.+.++
T Consensus       165 ~~aG~~E~Ava~~Qa~lE~n~  185 (321)
T PF08424_consen  165 RQAGYTERAVALWQALLEFNF  185 (321)
T ss_pred             HHCCchHHHHHHHHHHHHHHc
Confidence            678999999999999988765

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=88.04  E-value=6.3  Score=26.61  Aligned_cols=66  Identities=12%  Similarity=0.078  Sum_probs=41.7

Q ss_pred             hhHHHHHHHHHHHCCCCCC---hhH-----HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 027412          113 MKSAFDVYEEMCENNISPN---IVS-----YSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR  182 (223)
Q Consensus       113 ~~~a~~~~~~~~~~~~~~~---~~~-----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  182 (223)
                      .+.|+.+|+.+.+.- +++   ...     -...+..|.+.|.+++|.+++++....   |+......-+...++..+
T Consensus        85 LESAl~v~~~I~~E~-~~~~~lhe~i~~lik~~aV~VCm~~g~Fk~A~eiLkr~~~d---~~~~~~r~kL~~II~~Kd  158 (200)
T cd00280          85 LESALMVLESIEKEF-SLPETLHEEIRKLIKEQAVAVCMENGEFKKAEEVLKRLFSD---PESQKLRMKLLMIIREKD  158 (200)
T ss_pred             HHHHHHHHHHHHHhc-CCcHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---CCchhHHHHHHHHHHccc
Confidence            467888888887653 222   111     233456788889999999999888763   455444555555555554

Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=87.77  E-value=19  Score=31.82  Aligned_cols=54  Identities=17%  Similarity=0.109  Sum_probs=26.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          139 IDGLCKRGLMEEALYAFHCALDNHLLPDV--VTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       139 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      +.+|..+|+|.+|+.+..++...   .+.  .+-..|+.-+...+++-+|-++..+...
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s 1027 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLS 1027 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc
Confidence            44455555555555555444221   111  1124455556666666666665555443

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=87.75  E-value=1.8  Score=31.51  Aligned_cols=35  Identities=23%  Similarity=0.233  Sum_probs=19.1

Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhH
Q 027412          171 AILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLL  205 (223)
Q Consensus       171 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  205 (223)
                      +..|....+.||+++|++++++..+.|+.--..+|
T Consensus       261 ~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tF  295 (303)
T PRK10564        261 NQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTF  295 (303)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHH
Confidence            45555555556666666666655555554444443

>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=87.58  E-value=5.8  Score=28.27  Aligned_cols=61  Identities=11%  Similarity=-0.014  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----CCC-CCCHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALD----NHL-LPDVVTYAILIRGYCKAGRPTEAMQLYDSML  194 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  194 (223)
                      ....+..-|.+.|++++|.++|+.+..    .|. .+...+...+..++.+.|+.+....+.-++.
T Consensus       180 l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l~~~leLl  245 (247)
T PF11817_consen  180 LSLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYLTTSLELL  245 (247)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            445677788889999999999887752    222 2345566777888888888888777766554

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.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=87.45  E-value=2.5  Score=21.34  Aligned_cols=33  Identities=18%  Similarity=0.243  Sum_probs=18.2

Q ss_pred             HhcCCcchHHHHHHHHHHCCCCCchhhHHHHhh
Q 027412          178 CKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLAD  210 (223)
Q Consensus       178 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  210 (223)
                      .+.|-.+++..++++|.+.|+..++..+..+++
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            444555555556666655555555555555443

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=87.24  E-value=4.3  Score=33.12  Aligned_cols=89  Identities=19%  Similarity=0.185  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccH---------
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANV---------   97 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------   97 (223)
                      ..+...+...+.+...+..|-++|.+|-.         ...+++.....++|.+|..+-++.-+.  .|++         
T Consensus       747 re~l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLA  815 (1081)
T KOG1538|consen  747 REPLLLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLA  815 (1081)
T ss_pred             hhHHHHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhh
Confidence            44455555555666667777777777642         124666777788888888777654331  1111         


Q ss_pred             --HHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           98 --VTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        98 --~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                        .-|...-++|.+.|+..+|.++++++...
T Consensus       816 E~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  816 ENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence              12333445566666666666666666543

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=87.20  E-value=3.2  Score=22.32  Aligned_cols=25  Identities=24%  Similarity=0.420  Sum_probs=13.3

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHH
Q 027412           30 YNTIICGYCSLNRLDEAVQLFEKLT   54 (223)
Q Consensus        30 ~~~l~~~~~~~~~~~~a~~~~~~~~   54 (223)
                      .-.++.++...|++++|.++++++.
T Consensus        26 hLqvI~gllqlg~~~~a~eYi~~~~   50 (62)
T PF14689_consen   26 HLQVIYGLLQLGKYEEAKEYIKELS   50 (62)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3445555556666666665555553

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=86.47  E-value=6.8  Score=25.34  Aligned_cols=83  Identities=17%  Similarity=0.211  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHHCCC-----CCChhHHHHHHHHHHhcCC-HHHHHHHHHHHHhCCCCCCHHHHHH
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENNI-----SPNIVSYSILIDGLCKRGL-MEEALYAFHCALDNHLLPDVVTYAI  172 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~  172 (223)
                      ..++++.-....++......+++.+.....     ..+...|..++.+..+... ---+..+|.-+.+.+.++++..|..
T Consensus        41 fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~  120 (145)
T PF13762_consen   41 FINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSC  120 (145)
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            456666666667777777777777643210     2344456667766655554 3345566666666566667777777


Q ss_pred             HHHHHHhcC
Q 027412          173 LIRGYCKAG  181 (223)
Q Consensus       173 l~~~~~~~g  181 (223)
                      ++.++.+..
T Consensus       121 li~~~l~g~  129 (145)
T PF13762_consen  121 LIKAALRGY  129 (145)
T ss_pred             HHHHHHcCC
Confidence            777766543

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=86.24  E-value=7  Score=26.56  Aligned_cols=33  Identities=24%  Similarity=0.038  Sum_probs=23.9

Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412          129 SPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       129 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      .|++.++..++.++...|+.++|.++..++...
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            577777777777777777777777777776654

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=85.98  E-value=8.1  Score=26.26  Aligned_cols=35  Identities=29%  Similarity=0.359  Sum_probs=30.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCC
Q 027412          164 LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMP  200 (223)
Q Consensus       164 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p  200 (223)
                      .|++.+|..++.++...|+.++|.++..++..  .-|
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~--lyP  175 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARR--LYP  175 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCC
Confidence            47888899999999999999999999998887  455

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.91  E-value=13  Score=31.89  Aligned_cols=118  Identities=16%  Similarity=0.219  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHHCC---CCCChhHHHHHHHHHHhcCCH--HHHHHHHHHHHhCCCCCCHHHHH--
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENN---ISPNIVSYSILIDGLCKRGLM--EEALYAFHCALDNHLLPDVVTYA--  171 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~--  171 (223)
                      -|..|+..|...|+.++|+++|.+.....   ...-...+..++....+.+..  +-.+++-+-..+..+......+.  
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~~p~~gi~Ift~~  585 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYADWVLNKNPEAGIQIFTSE  585 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhhhhhccCchhheeeeecc
Confidence            47889999999999999999999987632   111122344456666666554  55555554444433221111111  


Q ss_pred             ----------HHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcC
Q 027412          172 ----------ILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSS  216 (223)
Q Consensus       172 ----------~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  216 (223)
                                ..+-.|......+-+..+++.+....-.++....+.++..|++.-
T Consensus       586 ~~~~~~sis~~~Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e~v  640 (877)
T KOG2063|consen  586 DKQEAESISRDDVLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLEKV  640 (877)
T ss_pred             ChhhhccCCHHHHHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHHHH
Confidence                      123345667788889999999998766777788888888877643

>PF09797 NatB_MDM20: N-acetyltransferase B complex (NatB) non catalytic subunit; InterPro: IPR019183 This is the non-catalytic subunit of the N-terminal acetyltransferase B complex (NatB)

Probab=85.86  E-value=7.9  Score=29.44  Aligned_cols=113  Identities=13%  Similarity=0.125  Sum_probs=62.5

Q ss_pred             CHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH-HHH
Q 027412            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT-MMF   85 (223)
Q Consensus         7 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~   85 (223)
                      .+-+|+-+++...... +.+...--.+++.|...|-...|..+|..+.-..+..|.-.+. +..-+...|....+. ..+
T Consensus       198 ~l~~Ai~lLE~~l~~s-~~n~~~~LlLvrlY~~LG~~~~A~~~~~~L~iK~IQ~DTL~h~-~~~r~~~~~~~~~~~~~~~  275 (365)
T PF09797_consen  198 YLLQAIALLEHALKKS-PHNYQLKLLLVRLYSLLGAGSLALEHYESLDIKNIQLDTLGHL-ILDRLSTLGPFKSAPENLL  275 (365)
T ss_pred             HHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHhcChHHHHHHHhHHH-HHHHHhccCcccccchHHH
Confidence            4556777888877764 4466677788999999999999999998875444444444333 222233333333333 333


Q ss_pred             HHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHH
Q 027412           86 SKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE  122 (223)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  122 (223)
                      +...+.-.. +.......+....+.|.+.+..++.+-
T Consensus       276 ~~~~~fy~~-~~~~~~e~i~~af~~gsysKi~ef~~F  311 (365)
T PF09797_consen  276 ENALKFYDN-SEKETPEFIIKAFENGSYSKIEEFIEF  311 (365)
T ss_pred             HHHHHHHHH-HHHHHHHHHHHHHhCCCchhHHHHHHH
Confidence            322221100 111112234444556666666655543

The NatB complex catalyses the acetylation of the amino-terminal methionine residue of all proteins beginning with Met-Asp or Met-Glu and of some proteins beginning with Met-Asn or Met-Met. In Saccharomyces cerevisiae (Baker's yeast) this subunit is called MDM20 and in Schizosaccharomyces pombe (Fission yeast) it is called Arm1. NatB acetylates the Tpm1 protein and regulates and tropomyocin-actin interactions. This subunit is required by the NatB complex for the N-terminal acetylation of Tpm1 [].

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=85.85  E-value=8.6  Score=25.99  Aligned_cols=64  Identities=9%  Similarity=0.143  Sum_probs=37.1

Q ss_pred             hhHHHHHHHHHHhcCCCccH--H-----HHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh
Q 027412           78 MDDATMMFSKMLEKGPKANV--V-----TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK  144 (223)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~--~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  144 (223)
                      .+.|+.+++.+.+.-..|..  .     .--..+..|.+.|.+++|.+++++....   |+......-+....+
T Consensus        85 LESAl~v~~~I~~E~~~~~~lhe~i~~lik~~aV~VCm~~g~Fk~A~eiLkr~~~d---~~~~~~r~kL~~II~  155 (200)
T cd00280          85 LESALMVLESIEKEFSLPETLHEEIRKLIKEQAVAVCMENGEFKKAEEVLKRLFSD---PESQKLRMKLLMIIR  155 (200)
T ss_pred             HHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---CCchhHHHHHHHHHH
Confidence            45677777777665443311  1     1223455678888888888888888763   343333444444443

Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=85.26  E-value=0.81  Score=33.81  Aligned_cols=94  Identities=16%  Similarity=0.107  Sum_probs=64.6

Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHH
Q 027412           37 YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSA  116 (223)
Q Consensus        37 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  116 (223)
                      ....|.++.|++.|...+..+ ++....|..-.+++.+.+.+..|++=++.....++. +..-|-.-..+-...|+|+++
T Consensus       124 Aln~G~~~~ai~~~t~ai~ln-p~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~D-sa~~ykfrg~A~rllg~~e~a  201 (377)
T KOG1308|consen  124 ALNDGEFDTAIELFTSAIELN-PPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPD-SAKGYKFRGYAERLLGNWEEA  201 (377)
T ss_pred             HhcCcchhhhhcccccccccC-CchhhhcccccceeeeccCCchhhhhhhhhhccCcc-cccccchhhHHHHHhhchHHH
Confidence            345677888888888877665 335556666667777788888888888777776544 334444445555667888888


Q ss_pred             HHHHHHHHHCCCCCCh
Q 027412          117 FDVYEEMCENNISPNI  132 (223)
Q Consensus       117 ~~~~~~~~~~~~~~~~  132 (223)
                      .+.|....+.++.+..
T Consensus       202 a~dl~~a~kld~dE~~  217 (377)
T KOG1308|consen  202 AHDLALACKLDYDEAN  217 (377)
T ss_pred             HHHHHHHHhccccHHH
Confidence            8888888877654443

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=84.98  E-value=5.8  Score=23.33  Aligned_cols=54  Identities=24%  Similarity=0.165  Sum_probs=31.3

Q ss_pred             HhcCCHHHHHHHHHHHHhC----CCCC----CHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          143 CKRGLMEEALYAFHCALDN----HLLP----DVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~----~~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      .+.|++..|.+.+.+..+.    +...    -......+.......|++++|...+++.++.
T Consensus         9 ~~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~   70 (94)
T PF12862_consen    9 LRSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRL   70 (94)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            4566777775555544432    2111    1123334555667778888888888887754

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=84.46  E-value=4.1  Score=31.68  Aligned_cols=102  Identities=23%  Similarity=0.164  Sum_probs=53.1

Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCc-HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChh
Q 027412           36 GYCSLNRLDEAVQLFEKLTCVQLKPN-SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK  114 (223)
Q Consensus        36 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  114 (223)
                      .+...+.++.|..++.++++.  .|+ ...|..=..++.+.+++..|+.=+...++..+. ....|.--..++...+.+.
T Consensus        13 ~~l~~~~fd~avdlysKaI~l--dpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~-~~K~Y~rrg~a~m~l~~~~   89 (476)
T KOG0376|consen   13 EALKDKVFDVAVDLYSKAIEL--DPNCAIYFANRALAHLKVESFGGALHDALKAIELDPT-YIKAYVRRGTAVMALGEFK   89 (476)
T ss_pred             hhcccchHHHHHHHHHHHHhc--CCcceeeechhhhhheeechhhhHHHHHHhhhhcCch-hhheeeeccHHHHhHHHHH
Confidence            344455666666666666655  332 222333335556666666666655555554433 3334444445555556666


Q ss_pred             HHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412          115 SAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus       115 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      +|...|+....  +.|+..-..-.+.-|
T Consensus        90 ~A~~~l~~~~~--l~Pnd~~~~r~~~Ec  115 (476)
T KOG0376|consen   90 KALLDLEKVKK--LAPNDPDATRKIDEC  115 (476)
T ss_pred             HHHHHHHHhhh--cCcCcHHHHHHHHHH
Confidence            66666666555  345544444444333

>PRK10941 hypothetical protein; Provisional

Probab=84.25  E-value=14  Score=26.89  Aligned_cols=80  Identities=10%  Similarity=-0.034  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHH
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL-LPDVVTYAILIRGY  177 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~  177 (223)
                      ..+.+-.+|.+.++++.|+.+.+.+.... |.++.-+.--...|.+.|.+..|..-++...+.-+ .|+.......+...
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~-P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~dp~a~~ik~ql~~l  261 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFD-PEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPEDPISEMIRAQIHSI  261 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCCchhHHHHHHHHHHH
Confidence            34556677888888888888888888764 56666677777778888888888888877765432 24555555555544


Q ss_pred             Hh
Q 027412          178 CK  179 (223)
Q Consensus       178 ~~  179 (223)
                      ..
T Consensus       262 ~~  263 (269)
T PRK10941        262 EQ  263 (269)
T ss_pred             hh
Confidence            43

>PF09670 Cas_Cas02710: CRISPR-associated protein (Cas_Cas02710)

Probab=84.23  E-value=17  Score=27.95  Aligned_cols=56  Identities=16%  Similarity=0.269  Sum_probs=36.9

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCccHH--HHHHHHHHHH--hhCChhHHHHHHHHHHHC
Q 027412           70 DAFCKEGRMDDATMMFSKMLEKGPKANVV--TYSCLIDGYF--KSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~--~~~~~~~a~~~~~~~~~~  126 (223)
                      ..+.+.+++..|.++++.+..+ ++++..  .+..+..+|.  ..-++++|.+.++.....
T Consensus       139 ~~l~n~~~y~aA~~~l~~l~~r-l~~~~~~~~~~~l~~~y~~WD~fd~~~A~~~l~~~~~~  198 (379)
T PF09670_consen  139 KELFNRYDYGAAARILEELLRR-LPGREEYQRYKDLCEGYDAWDRFDHKEALEYLEKLLKR  198 (379)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHh-CCchhhHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            3445778888888888888876 443333  4444444443  456777888888877654

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=83.81  E-value=5.2  Score=32.47  Aligned_cols=33  Identities=30%  Similarity=0.353  Sum_probs=0.0

Q ss_pred             hcCCcchHHHHHHHHHHCCCCCchhhHHHHhhh
Q 027412          179 KAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADY  211 (223)
Q Consensus       179 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  211 (223)
                      ..|++.+|.+.+-.+.+.+..|...-...|.++
T Consensus       507 ~~~~~~~Aa~~Lv~Ll~~~~~Pk~f~~~LL~d~  539 (566)
T PF07575_consen  507 DEGDFREAASLLVSLLKSPIAPKSFWPLLLCDA  539 (566)
T ss_dssp             ---------------------------------
T ss_pred             hhhhHHHHHHHHHHHHCCCCCcHHHHHHHHHHH
Confidence            447788888888888887777776655555544

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.

>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=83.66  E-value=2.2  Score=27.00  Aligned_cols=31  Identities=29%  Similarity=0.397  Sum_probs=17.8

Q ss_pred             hcCCcchHHHHHHHHHHCCCCCchhhHHHHhhh
Q 027412          179 KAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADY  211 (223)
Q Consensus       179 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  211 (223)
                      ..|.-..|-.+|++|++.|-.||  .|+.|+..
T Consensus       107 ~ygsk~DaY~VF~kML~~G~pPd--dW~~Ll~~  137 (140)
T PF11663_consen  107 AYGSKTDAYAVFRKMLERGNPPD--DWDALLKE  137 (140)
T ss_pred             hhccCCcHHHHHHHHHhCCCCCc--cHHHHHHH
Confidence            33555566666666666666665  44555443

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 [].

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=83.31  E-value=22  Score=28.51  Aligned_cols=166  Identities=13%  Similarity=0.088  Sum_probs=110.3

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      +-.++-...+..+|...|  -+...+..++.+|... ..++-..+++++.+..+. |+..-..|...|-+ ++.+.+..+
T Consensus        79 n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~~yEk-ik~sk~a~~  153 (711)
T COG1747          79 NHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELADKYEK-IKKSKAAEF  153 (711)
T ss_pred             chHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHHHHHH-hchhhHHHH
Confidence            334555666677777764  3667888999999888 668888999999887655 55555556666655 888888888


Q ss_pred             HHHHHhcCCCc-----cHHHHHHHHHHHHhhCChhHHHHHHHHHHHC-CCCCChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412           85 FSKMLEKGPKA-----NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN-NISPNIVSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus        85 ~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      |.++..+-++.     -...|.-+...-  ..+.+....+..++... |...-...+..+-.-|....++++|++++...
T Consensus       154 f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~eN~~eai~Ilk~i  231 (711)
T COG1747         154 FGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENENWTEAIRILKHI  231 (711)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccccCHHHHHHHHHHH
Confidence            88876652220     123455444321  35677777777777643 33334455666667788889999999999988


Q ss_pred             HhCCCCCCHHHHHHHHHHHH
Q 027412          159 LDNHLLPDVVTYAILIRGYC  178 (223)
Q Consensus       159 ~~~~~~~~~~~~~~l~~~~~  178 (223)
                      ++.+- .|...-..++.-+.
T Consensus       232 l~~d~-k~~~ar~~~i~~lR  250 (711)
T COG1747         232 LEHDE-KDVWARKEIIENLR  250 (711)
T ss_pred             hhhcc-hhhhHHHHHHHHHH
Confidence            87654 35555555555443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=83.19  E-value=25  Score=29.06  Aligned_cols=179  Identities=18%  Similarity=0.203  Sum_probs=105.6

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHH-hCCCCCc--HHHHHHHHHHHH-hcCChhHHHHHHHHHHhcCCCccHH---
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLT-CVQLKPN--SITFTILIDAFC-KEGRMDDATMMFSKMLEKGPKANVV---   98 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~--~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~---   98 (223)
                      +...|..||..         |+..++.+. ...++|.  ..++-.+...+. ...+++.|+..+.+......+++..   
T Consensus        29 ~l~~Y~kLI~~---------ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k   99 (608)
T PF10345_consen   29 QLKQYYKLIAT---------AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLK   99 (608)
T ss_pred             hHHHHHHHHHH---------HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHH
Confidence            45566666653         445555555 3333333  345555666665 6789999999999876654332222   


Q ss_pred             --HHHHHHHHHHhhCChhHHHHHHHHHHHCC----CCCChhHHHHH-HHHHHhcCCHHHHHHHHHHHHhCC---CCCCHH
Q 027412           99 --TYSCLIDGYFKSQNMKSAFDVYEEMCENN----ISPNIVSYSIL-IDGLCKRGLMEEALYAFHCALDNH---LLPDVV  168 (223)
Q Consensus        99 --~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~  168 (223)
                        .-..++..+.+.+... |...+++.++.-    ..+-...+..+ +..+...+++..|.+.++.+...-   ..|...
T Consensus       100 ~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~  178 (608)
T PF10345_consen  100 FRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVF  178 (608)
T ss_pred             HHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHH
Confidence              2334566777766655 999888877541    11222333333 333333479999999998876432   334555


Q ss_pred             HHHHHHHHHH--hcCCcchHHHHHHHHHHCCC---------CCchhhHHHHhhhHhh
Q 027412          169 TYAILIRGYC--KAGRPTEAMQLYDSMLRNGI---------MPDGLLLSTLADYNLQ  214 (223)
Q Consensus       169 ~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~~---------~p~~~~~~~l~~~~~~  214 (223)
                      ++..++.+..  +.+..+++.+.++++.....         .|...++..+++.++.
T Consensus       179 v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~  235 (608)
T PF10345_consen  179 VLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCS  235 (608)
T ss_pred             HHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHH
Confidence            5555665544  44556778888877743321         2345677777776554

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=82.96  E-value=27  Score=29.28  Aligned_cols=58  Identities=16%  Similarity=0.159  Sum_probs=33.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          139 IDGLCKRGLMEEALYAFHCALDN-HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       139 ~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      .+-....|..+.|++.--.+.+. .+-|....|+.+.-+.+..+.+...-+.|-++...
T Consensus      1028 AQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFGtCSKAfmkLe~~ 1086 (1189)
T KOG2041|consen 1028 AQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFGTCSKAFMKLEAF 1086 (1189)
T ss_pred             HHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhhhhHHHHHHHHhh
Confidence            33344556666666654444332 34466677777777766666666666666555543

>PRK09687 putative lyase; Provisional

Probab=82.80  E-value=16  Score=26.68  Aligned_cols=88  Identities=16%  Similarity=0.148  Sum_probs=53.1

Q ss_pred             hHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          114 KSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       114 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                      ..+...+..+..   .++..+-...+.++.+.++ ..+...+-...+.+   +  .....+.++...|.. +|...+..+
T Consensus       191 ~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~a~p~L~~l  260 (280)
T PRK09687        191 PDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGELGDK-TLLPVLDTL  260 (280)
T ss_pred             HHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-hHHHHHHHH
Confidence            345555555553   3466666777777777777 44555555555432   2  234566777777775 577777777


Q ss_pred             HHCCCCCchhhHHHHhhhHh
Q 027412          194 LRNGIMPDGLLLSTLADYNL  213 (223)
Q Consensus       194 ~~~~~~p~~~~~~~l~~~~~  213 (223)
                      .+.  .||..+-...+.+|.
T Consensus       261 ~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        261 LYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             Hhh--CCChhHHHHHHHHHh
Confidence            763  456666666665553

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=82.66  E-value=5  Score=29.35  Aligned_cols=31  Identities=19%  Similarity=0.124  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALDNHLL  164 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  164 (223)
                      -|+..|....+.||+++|+.++++..+.|..
T Consensus       259 Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~  289 (303)
T PRK10564        259 YFNQAIKQAVKKGDVDKALKLLDEAERLGST  289 (303)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc
Confidence            3456677777777777777777777776654

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=82.65  E-value=5.7  Score=21.33  Aligned_cols=16  Identities=38%  Similarity=0.283  Sum_probs=5.6

Q ss_pred             HHHHhcCCHHHHHHHH
Q 027412          140 DGLCKRGLMEEALYAF  155 (223)
Q Consensus       140 ~~~~~~~~~~~a~~~~  155 (223)
                      .++...|++++|.+++
T Consensus        31 ~gllqlg~~~~a~eYi   46 (62)
T PF14689_consen   31 YGLLQLGKYEEAKEYI   46 (62)
T ss_dssp             HHHHHTT-HHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHH
Confidence            3333333333333333

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=82.63  E-value=23  Score=28.24  Aligned_cols=109  Identities=11%  Similarity=-0.044  Sum_probs=74.3

Q ss_pred             HHHhcCChhHHHHHHHHHHh---cCC--Cc---cHHHHHHHHHHHHhhCChhHHHHHHHHHHH-------CCCCCCh---
Q 027412           71 AFCKEGRMDDATMMFSKMLE---KGP--KA---NVVTYSCLIDGYFKSQNMKSAFDVYEEMCE-------NNISPNI---  132 (223)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~---~~~--~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~---  132 (223)
                      .+.-.|++.+|.+++-..--   .|.  .|   ....||.+.-...+.|.+..+..+|.++.+       .|++|..   
T Consensus       249 ~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~t  328 (696)
T KOG2471|consen  249 LEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFT  328 (696)
T ss_pred             HHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCccee
Confidence            44557899999888754321   111  11   223467777777888888888888877764       3544421   


Q ss_pred             -------hHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 027412          133 -------VSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA  180 (223)
Q Consensus       133 -------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  180 (223)
                             .......-.|...|++-.|.+.|.+.... +..++..|.-+..+|...
T Consensus       329 ls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~v-fh~nPrlWLRlAEcCima  382 (696)
T KOG2471|consen  329 LSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHV-FHRNPRLWLRLAECCIMA  382 (696)
T ss_pred             hhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHH-HhcCcHHHHHHHHHHHHH
Confidence                   23344566788899999999999887653 346888999999998754

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=82.12  E-value=7.8  Score=22.53  Aligned_cols=14  Identities=14%  Similarity=0.219  Sum_probs=5.8

Q ss_pred             CChhHHHHHHHHHH
Q 027412          111 QNMKSAFDVYEEMC  124 (223)
Q Consensus       111 ~~~~~a~~~~~~~~  124 (223)
                      |+.+.|.+++..+.
T Consensus        50 g~~~~ar~LL~~L~   63 (88)
T cd08819          50 GNESGARELLKRIV   63 (88)
T ss_pred             CcHHHHHHHHHHhc
Confidence            34444444444433

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

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=82.04  E-value=16  Score=26.04  Aligned_cols=37  Identities=16%  Similarity=0.346  Sum_probs=18.3

Q ss_pred             CCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCch
Q 027412          165 PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDG  202 (223)
Q Consensus       165 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  202 (223)
                      |.+.....++..|.. +++++|.+.+.++.+.|..|..
T Consensus       237 PhP~~v~~ml~~~~~-~~~~~A~~il~~lw~lgysp~D  273 (333)
T KOG0991|consen  237 PHPLLVKKMLQACLK-RNIDEALKILAELWKLGYSPED  273 (333)
T ss_pred             CChHHHHHHHHHHHh-ccHHHHHHHHHHHHHcCCCHHH
Confidence            444444444444333 4455555555555555555543

>PHA02875 ankyrin repeat protein; Provisional

Probab=81.78  E-value=21  Score=27.61  Aligned_cols=68  Identities=13%  Similarity=0.110  Sum_probs=28.9

Q ss_pred             HHHHhhCCCCcCHHH--HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHH--HHHHHHHHHHhcCChhHHHHHHH
Q 027412           15 FGQLTDRGLEPDIIT--YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI--TFTILIDAFCKEGRMDDATMMFS   86 (223)
Q Consensus        15 ~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~   86 (223)
                      ++.+.+.|..|+...  -.+.+...+..|+.+-+    +.+.+.|..|+..  .....+...+..|+.+.+..+++
T Consensus        18 v~~Ll~~g~~~n~~~~~g~tpL~~A~~~~~~~~v----~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~   89 (413)
T PHA02875         18 ARRLLDIGINPNFEIYDGISPIKLAMKFRDSEAI----KLLMKHGAIPDVKYPDIESELHDAVEEGDVKAVEELLD   89 (413)
T ss_pred             HHHHHHCCCCCCccCCCCCCHHHHHHHcCCHHHH----HHHHhCCCCccccCCCcccHHHHHHHCCCHHHHHHHHH
Confidence            334444555544322  22334445556665533    3333344333321  11123344455666655544443

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=81.43  E-value=12  Score=24.04  Aligned_cols=67  Identities=12%  Similarity=0.133  Sum_probs=41.3

Q ss_pred             ccHHHHHHHHHHHHhhCC---hhHHHHHHHHHHHCCCCC--ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           95 ANVVTYSCLIDGYFKSQN---MKSAFDVYEEMCENNISP--NIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        95 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ++..+-..+..++.+..+   ..+.+.+++.+.+.. +|  .......|.-++.+.++++.++++.+.+++..
T Consensus        30 ~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~-~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e  101 (149)
T KOG3364|consen   30 VSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSA-HPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETE  101 (149)
T ss_pred             chHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhc-CcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            445555556666666544   445667777776522 22  23344556667778888888888887777654

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=81.14  E-value=11  Score=23.73  Aligned_cols=47  Identities=4%  Similarity=0.130  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      +..+-+.....-+..|++.....-+++|.+.+|+..|.++|+-++.+
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K  113 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK  113 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            34455556666677788888888888888888888888888877644

>PRK10941 hypothetical protein; Provisional

Probab=81.11  E-value=19  Score=26.22  Aligned_cols=80  Identities=16%  Similarity=-0.018  Sum_probs=62.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC-CCCCchhhHHHHhhhH
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN-GIMPDGLLLSTLADYN  212 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~  212 (223)
                      ..+.+-.+|.+.++++.|+++.+.+....+ .++.-+.--.-.|.+.|.+..|..=++..++. .-.|+.......+...
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P-~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~dp~a~~ik~ql~~l  261 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDP-EDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPEDPISEMIRAQIHSI  261 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCCchhHHHHHHHHHHH
Confidence            457777889999999999999999998776 46666777777899999999999999988875 2345555555555555


Q ss_pred             hh
Q 027412          213 LQ  214 (223)
Q Consensus       213 ~~  214 (223)
                      -+
T Consensus       262 ~~  263 (269)
T PRK10941        262 EQ  263 (269)
T ss_pred             hh
Confidence            43

>KOG4814 consensus Uncharacterized conserved protein [Function unknown]

Probab=80.75  E-value=31  Score=28.56  Aligned_cols=87  Identities=11%  Similarity=0.158  Sum_probs=62.8

Q ss_pred             HHhhCChhHHHHHHHHHHHCCCCCC------hhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 027412          107 YFKSQNMKSAFDVYEEMCENNISPN------IVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA  180 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  180 (223)
                      ..+..+|..+.++|..-... ++.|      ......+.-+|.+..++|.|.++++++.+.++ .++.+--.+..+....
T Consensus       364 ~F~~~~Y~~s~~~y~~Sl~~-i~~D~~~~~FaK~qR~l~~CYL~L~QLD~A~E~~~EAE~~d~-~~~l~q~~~~~~~~~E  441 (872)
T KOG4814|consen  364 LFKMEKYVVSIRFYKLSLKD-IISDNYSDRFAKIQRALQVCYLKLEQLDNAVEVYQEAEEVDR-QSPLCQLLMLQSFLAE  441 (872)
T ss_pred             HHHHHHHHHHHHHHHHHHHh-ccchhhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHh
Confidence            45667788888888765432 2222      22456677788888999999999999988765 3666666777888888


Q ss_pred             CCcchHHHHHHHHHH
Q 027412          181 GRPTEAMQLYDSMLR  195 (223)
Q Consensus       181 g~~~~a~~~~~~~~~  195 (223)
                      |.-++|+........
T Consensus       442 ~~Se~AL~~~~~~~s  456 (872)
T KOG4814|consen  442 DKSEEALTCLQKIKS  456 (872)
T ss_pred             cchHHHHHHHHHHHh
Confidence            888888887766653

>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]

Probab=80.13  E-value=25  Score=29.20  Aligned_cols=91  Identities=12%  Similarity=0.165  Sum_probs=55.9

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCC--CCCcHHHHHHHHHHHHhcCChh------HHHHHHHHHHhcCCCccHHHHHHH
Q 027412           32 TIICGYCSLNRLDEAVQLFEKLTCVQ--LKPNSITFTILIDAFCKEGRMD------DATMMFSKMLEKGPKANVVTYSCL  103 (223)
Q Consensus        32 ~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~------~a~~~~~~~~~~~~~~~~~~~~~l  103 (223)
                      .|..+|...|++-++.++++.+...+  -+.-...+|..++...+.|.++      .+.+.+++..   ..-|..||..+
T Consensus        33 sl~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~sf~l~~~~~~~~~~lq~a~---ln~d~~t~all  109 (1117)
T COG5108          33 SLFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRGSFELTDVLSNAKELLQQAR---LNGDSLTYALL  109 (1117)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcCCccHHHHHHHHHHHHHHhh---cCCcchHHHHH
Confidence            77788888888888888888876543  2223456777777778887754      3334444333   33466777777


Q ss_pred             HHHHHhhCChhHHHHHHHHHHH
Q 027412          104 IDGYFKSQNMKSAFDVYEEMCE  125 (223)
Q Consensus       104 ~~~~~~~~~~~~a~~~~~~~~~  125 (223)
                      +.+....-+-.-...++.+.+.
T Consensus       110 ~~~sln~t~~~l~~pvl~~~i~  131 (1117)
T COG5108         110 CQASLNPTQRQLGLPVLHELIH  131 (1117)
T ss_pred             HHhhcChHhHHhccHHHHHHHH
Confidence            7666554444444444444443

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=80.02  E-value=3.9  Score=17.78  Aligned_cols=25  Identities=28%  Similarity=0.426  Sum_probs=10.8

Q ss_pred             ChhHHHHHHHHHHhcCCCccHHHHHH
Q 027412           77 RMDDATMMFSKMLEKGPKANVVTYSC  102 (223)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~  102 (223)
                      +.+.+..+|+++....+. +...|..
T Consensus         2 ~~~~~r~i~e~~l~~~~~-~~~~W~~   26 (33)
T smart00386        2 DIERARKIYERALEKFPK-SVELWLK   26 (33)
T ss_pred             cHHHHHHHHHHHHHHCCC-ChHHHHH
Confidence            344445555555444332 3444443

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	223
2fo7_A	136	Crystal Structure Of An 8 Repeat Consensus Tpr Supe		5e-04

>pdb|2FO7|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix (Trigonal Crystal Form) Length = 136

Iteration: 1
 Score = 41.2 bits (95), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 35/134 (26%), Positives = 62/134 (46%), Gaps = 7/134 (5%)
Query: 64  TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM 123
            +  L +A+ K+G  D+A   + K LE  P++    Y+ L + Y+K  +   A + Y++ 
Sbjct: 3   AWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYN-LGNAYYKQGDYDEAIEYYQKA 61
Query: 124 CENNISPNIV-SYSILIDGLCKRGLMEEALYAFHCALDNHLLP-DVVTYAILIRGYCKAG 181
            E  + P    ++  L +   K+G  +EA+  +  AL+  L P     +  L   Y K G
Sbjct: 62  LE--LDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE--LDPRSAEAWYNLGNAYYKQG 117
Query: 182 RPTEAMQLYDSMLR 195
              EA++ Y   L 
Sbjct: 118 DYDEAIEYYQKALE 131

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	223
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-18
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-17
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	1e-09
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	3e-08
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	5e-06
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	2e-04
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	2e-04
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	1e-07
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	9e-06
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	9e-07
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	4e-04
2gw1_A	514	Mitochondrial precursor proteins import receptor;	2e-06
2gw1_A	514	Mitochondrial precursor proteins import receptor;	2e-06
2gw1_A	514	Mitochondrial precursor proteins import receptor;	1e-04
2gw1_A	514	Mitochondrial precursor proteins import receptor;	1e-04
3tax_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	3e-06
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	5e-06
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	6e-06
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	6e-06
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	2e-05
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	4e-05
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	7e-04
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	7e-05
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	4e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 81.4 bits (199), Expect = 5e-18
 Identities = 25/214 (11%), Positives = 66/214 (30%), Gaps = 4/214 (1%)

Query: 7   HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKL---TCVQLKPNSI 63
            LD      GQ +   L                 ++L  A  L          +      
Sbjct: 107 SLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLD 166

Query: 64  TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS-QNMKSAFDVYEE 122
            +  ++  + ++G   +   +   + + G   ++++Y+  +    +  Q+  +     E+
Sbjct: 167 MYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQ 226

Query: 123 MCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR 182
           M +  +    +  ++L+    +  +++              LP  V  + L+R       
Sbjct: 227 MSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDG 286

Query: 183 PTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSS 216
                +L+  +     + +  L   LA      S
Sbjct: 287 RVSYPKLHLPLKTLQCLFEKQLHMELASRVCVVS 320

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 80.2 bits (196), Expect = 1e-17
 Identities = 19/170 (11%), Positives = 53/170 (31%), Gaps = 4/170 (2%)

Query: 57  QLKPNSITFTILIDAFCKEGRMDDATMM---FSKMLEKGPKANVVTYSCLIDGYFKSQNM 113
           QL                  ++  A  +        +K     +  Y+ ++ G+ +    
Sbjct: 122 QLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAF 181

Query: 114 KSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH-LLPDVVTYAI 172
           K    V   + +  ++P+++SY+  +  + ++      +      +    L    +  A+
Sbjct: 182 KELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAV 241

Query: 173 LIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHC 222
           L+    +A       ++  +      +P  +  S L        G   + 
Sbjct: 242 LLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYP 291

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1 Length = 388

 Score = 56.4 bits (137), Expect = 1e-09
 Identities = 38/218 (17%), Positives = 79/218 (36%), Gaps = 25/218 (11%)

Query: 8   LDAALKLFGQLTDRGLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN-SITF 65
            +AA +   QL     EPD       +   +    RLD +         ++  P  +  +
Sbjct: 15  FEAAERHCMQLWR--QEPDNTGVLLLLSSIHFQCRRLDRSAHFSTL--AIKQNPLLAEAY 70

Query: 66  TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE 125
           + L + + + G++ +A   +   L   P   +  Y  L      + +M+ A   Y    +
Sbjct: 71  SNLGNVYKERGQLQEAIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQ 129

Query: 126 NNISPNIV-SYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRG--YCKAGR 182
              +P++    S L + L   G +EEA   +  A++    P+    A    G  +   G 
Sbjct: 130 --YNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE--TQPNFAV-AWSNLGCVFNAQGE 184

Query: 183 PTEAMQLYDSMLRNGIMPD--------GLLLSTLADYN 212
              A+  ++  +   + P+        G +L     ++
Sbjct: 185 IWLAIHHFEKAVT--LDPNFLDAYINLGNVLKEARIFD 220

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1 Length = 388

 Score = 52.2 bits (126), Expect = 3e-08
 Identities = 34/187 (18%), Positives = 66/187 (35%), Gaps = 20/187 (10%)

Query: 37  YCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDDATMMFSKMLEKGPKA 95
                  + A +   +L   + +P++     +L     +  R+D +    +  +++ P  
Sbjct: 9   EYQAGDFEAAERHCMQLW--RQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL- 65

Query: 96  NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIV-SYSILIDGLCKRGLMEEALYA 154
               YS L + Y +   ++ A + Y       + P+ +  Y  L   L   G ME A+ A
Sbjct: 66  LAEAYSNLGNVYKERGQLQEAIEHYRHALR--LKPDFIDGYINLAAALVAAGDMEGAVQA 123

Query: 155 FHCALDNHLLPDVV-TYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD--------GLLL 205
           +  AL     PD+    + L       GR  EA   Y   +     P+        G + 
Sbjct: 124 YVSALQ--YNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE--TQPNFAVAWSNLGCVF 179

Query: 206 STLADYN 212
           +   +  
Sbjct: 180 NAQGEIW 186

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1 Length = 388

 Score = 45.2 bits (108), Expect = 5e-06
 Identities = 39/196 (19%), Positives = 76/196 (38%), Gaps = 15/196 (7%)

Query: 1   MLIKECHLDAALKLFGQLTDRGLEPDII-TYNTIICGYCSLNRLDEAVQLFEKLTCVQLK 59
           +  +   L  A++ +       L+PD I  Y  +     +   ++ AVQ +     +Q  
Sbjct: 76  VYKERGQLQEAIEHYRHALR--LKPDFIDGYINLAAALVAAGDMEGAVQAYVS--ALQYN 131

Query: 60  PNSI-TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFD 118
           P+     + L +     GR+++A   + K +E  P    V +S L   +     +  A  
Sbjct: 132 PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIH 190

Query: 119 VYEEMCENNISPNIV-SYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRG- 176
            +E+     + PN + +Y  L + L +  + + A+ A+  AL   L P+           
Sbjct: 191 HFEKAVT--LDPNFLDAYINLGNVLKEARIFDRAVAAYLRALS--LSPNHAV-VHGNLAC 245

Query: 177 -YCKAGRPTEAMQLYD 191
            Y + G    A+  Y 
Sbjct: 246 VYYEQGLIDLAIDTYR 261

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1 Length = 388

 Score = 40.2 bits (95), Expect = 2e-04
 Identities = 34/152 (22%), Positives = 57/152 (37%), Gaps = 17/152 (11%)

Query: 71  AFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP 130
              + G  + A     ++  + P  N      L   +F+ + +  +        +   +P
Sbjct: 8   REYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIK--QNP 64

Query: 131 NIV-SYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVV-TYAILIRGYCKAGRPTEAMQ 188
            +  +YS L +   +RG ++EA+  +  AL   L PD +  Y  L      AG    A+Q
Sbjct: 65  LLAEAYSNLGNVYKERGQLQEAIEHYRHALR--LKPDFIDGYINLAAALVAAGDMEGAVQ 122

Query: 189 LYDSMLRNGIMPD--------GLLLSTLADYN 212
            Y S L+    PD        G LL  L    
Sbjct: 123 AYVSALQ--YNPDLYCVRSDLGNLLKALGRLE 152

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1 Length = 388

 Score = 40.2 bits (95), Expect = 2e-04
 Identities = 40/218 (18%), Positives = 80/218 (36%), Gaps = 25/218 (11%)

Query: 8   LDAALKLFGQLTDRGLEPDII-TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS-ITF 65
           ++ A++ +         PD+    + +     +L RL+EA   + K   ++ +PN  + +
Sbjct: 117 MEGAVQAYVSALQ--YNPDLYCVRSDLGNLLKALGRLEEAKACYLK--AIETQPNFAVAW 172

Query: 66  TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE 125
           + L   F  +G +  A   F K +   P   +  Y  L +   +++    A   Y     
Sbjct: 173 SNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALS 231

Query: 126 NNISPNIV-SYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRG--YCKAGR 182
             +SPN    +  L     ++GL++ A+  +  A+   L P     A         + G 
Sbjct: 232 --LSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAI--ELQPHFPD-AYCNLANALKEKGS 286

Query: 183 PTEAMQLYDSMLRNGIMPD--------GLLLSTLADYN 212
             EA   Y++ LR  + P           +     +  
Sbjct: 287 VAEAEDCYNTALR--LCPTHADSLNNLANIKREQGNIE 322

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 50.5 bits (121), Expect = 1e-07
 Identities = 25/188 (13%), Positives = 54/188 (28%), Gaps = 13/188 (6%)

Query: 8   LDAALKLFGQLTDRGLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TF 65
           +   L +  Q    GL P  ++   +   G  +L  +   + +  +     L P  +   
Sbjct: 190 VQRLLPVLCQ--AHGLTPQQVVAIASNGGGKQALETVQRLLPVLCQ--AHGLTPQQVVAI 245

Query: 66  TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE 125
                       +     +  +     P+  VV  +    G    + ++    V  +   
Sbjct: 246 ASNGGGKQALETVQRLLPVLCQAHGLTPQ-QVVAIASNSGGKQALETVQRLLPVLCQAHG 304

Query: 126 NNISPN-IVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPD-VVTYAILIRGYCKAGRP 183
             ++P  +V+ +    G      ++  L     A    L P  VV  A    G       
Sbjct: 305 --LTPQQVVAIASNGGGKQALETVQRLLPVLCQAHG--LTPQQVVAIASHDGGKQALETV 360

Query: 184 TEAMQLYD 191
              + +  
Sbjct: 361 QRLLPVLC 368

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 44.7 bits (106), Expect = 9e-06
 Identities = 24/176 (13%), Positives = 52/176 (29%), Gaps = 12/176 (6%)

Query: 8   LDAALKLFGQLTDRGLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TF 65
           +   L +  Q    GL P  ++   +   G  +L  +   + +  +     L P  +   
Sbjct: 326 VQRLLPVLCQ--AHGLTPQQVVAIASHDGGKQALETVQRLLPVLCQ--AHGLTPEQVVAI 381

Query: 66  TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE 125
                       +     +  +     P+  VV  +    G    + ++    V  +   
Sbjct: 382 ASNGGGKQALETVQRLLPVLCQAHGLTPE-QVVAIASHDGGKQALETVQRLLPVLCQAHG 440

Query: 126 NNISPN-IVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA 180
             ++P  +V+ +    G      +   L     AL    L +    A+   G   A
Sbjct: 441 --LTPQQVVAIASNGGGRPALESIVAQLSRPDPAL--AALTNDHLVALACLGGRPA 492

>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 Length = 537

 Score = 47.8 bits (114), Expect = 9e-07
 Identities = 32/188 (17%), Positives = 62/188 (32%), Gaps = 14/188 (7%)

Query: 8   LDAALKLFGQLTDRGLEPDI-ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFT 66
             + L          L  +  +        +   N L +A  L ++   + L P   ++ 
Sbjct: 225 YHSLLSANTVDDP--LRENAALALCYTGIFHFLKNNLLDAQVLLQE--SINLHPTPNSYI 280

Query: 67  ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN 126
            L      +    +    F K ++  P+    TY      YF  Q+ K+A + +++    
Sbjct: 281 FLALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQS- 338

Query: 127 NISPN-IVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRG--YCKAGRP 183
            ++P  +  Y  L   L K+G   E+   F+        P +               G  
Sbjct: 339 -LNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF--PTLPE-VPTFFAEILTDRGDF 394

Query: 184 TEAMQLYD 191
             A++ YD
Sbjct: 395 DTAIKQYD 402

>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 Length = 537

 Score = 40.1 bits (94), Expect = 4e-04
 Identities = 28/181 (15%), Positives = 52/181 (28%), Gaps = 18/181 (9%)

Query: 2   LIKECHLDAALKLFGQLTDRGLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
                + + A+K +    +  L+P+  + Y+ I   Y S   L++ ++   K   +++KP
Sbjct: 35  FFTAKNFNEAIKYYQYAIE--LDPNEPVFYSNISACYISTGDLEKVIEFTTK--ALEIKP 90

Query: 61  NSI-TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDV 119
           +          A    G   DA    S +   G           I+   +    K A  V
Sbjct: 91  DHSKALLRRASANESLGNFTDAMFDLSVLSLNGDFDGAS-----IEPMLERNLNKQAMKV 145

Query: 120 YEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCK 179
             E    +              L     +      F   L+   +     Y         
Sbjct: 146 LNENLSKD-------EGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSD 198

Query: 180 A 180
           A
Sbjct: 199 A 199

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 46.7 bits (111), Expect = 2e-06
 Identities = 33/195 (16%), Positives = 61/195 (31%), Gaps = 19/195 (9%)

Query: 8   LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN-SITFT 66
              A +   +  +  L P + +Y  +       N   E    F+K   ++L  N S  + 
Sbjct: 253 PLGAHEDIKKAIE--LFPRVNSYIYMALIMADRNDSTEYYNYFDK--ALKLDSNNSSVYY 308

Query: 67  ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN 126
                       D A   F K  E  P+ N+  Y  L    ++         ++ E    
Sbjct: 309 HRGQMNFILQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRK 367

Query: 127 NISPNIV-SYSILIDGLCKRGLMEEALYAFHCALD---------NHLLPDVVTYAILIRG 176
              P      +   + L  +   ++AL  +  A++           + P +V  A L+  
Sbjct: 368 F--PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAP-LVGKATLLTR 424

Query: 177 YCKAGRPTEAMQLYD 191
                   EA  L +
Sbjct: 425 NPTVENFIEATNLLE 439

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 46.7 bits (111), Expect = 2e-06
 Identities = 28/193 (14%), Positives = 54/193 (27%), Gaps = 14/193 (7%)

Query: 7   HLDAALKLFGQLTDRGLEPDI-ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITF 65
             +  L    +     L+  + I+           N    A +  +K   ++L P   ++
Sbjct: 218 LFEEQLDKNNEDEK--LKEKLAISLEHTGIFKFLKNDPLGAHEDIKK--AIELFPRVNSY 273

Query: 66  TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE 125
             +           +    F K L+     N   Y       F  QN   A   +++  E
Sbjct: 274 IYMALIMADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFILQNYDQAGKDFDKAKE 332

Query: 126 NNISPN-IVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRG--YCKAGR 182
             + P  I  Y  L     +    ++    F  A      P+                  
Sbjct: 333 --LDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF--PEAPEVPNF-FAEILTDKND 387

Query: 183 PTEAMQLYDSMLR 195
             +A++ YD  + 
Sbjct: 388 FDKALKQYDLAIE 400

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 41.3 bits (97), Expect = 1e-04
 Identities = 21/169 (12%), Positives = 48/169 (28%), Gaps = 17/169 (10%)

Query: 37  YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN 96
           +    + D+A++ +     ++LK + + ++ L   +   G +     M +K LE  P   
Sbjct: 16  FFRNKKYDDAIKYYNW--ALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPD-Y 72

Query: 97  VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL--MEEALYA 154
                              A      +  N    +     +L   L K+ +  ++E    
Sbjct: 73  SKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGD 132

Query: 155 FHCALDNHL------------LPDVVTYAILIRGYCKAGRPTEAMQLYD 191
              A                   + +     +  +    +P      YD
Sbjct: 133 IDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYD 181

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 41.3 bits (97), Expect = 1e-04
 Identities = 29/197 (14%), Positives = 54/197 (27%), Gaps = 18/197 (9%)

Query: 8   LDAALKLFGQLTDRGLEPDIITYNTI-ICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TF 65
            D A+K +    +  L+ D + Y+ +  C Y S+  L + V++  K   ++LKP+     
Sbjct: 22  YDDAIKYYNWALE--LKEDPVFYSNLSAC-YVSVGDLKKVVEMSTK--ALELKPDYSKVL 76

Query: 66  TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY-----FKSQNMKSAFDVY 120
                A    G+  DA    S +   G   +      L          K +      D  
Sbjct: 77  LRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTA 136

Query: 121 EEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVT------YAILI 174
                   +          + L     M      F   L      +           +  
Sbjct: 137 TATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLSN 196

Query: 175 RGYCKAGRPTEAMQLYD 191
                     +A + + 
Sbjct: 197 LYKRSPESYDKADESFT 213

>3tax_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; thiocarbamate crosslink, covalent inhibitor, gylcosyltransfe inhibitor, O-GLCNAC transferase; HET: UDP; 1.88A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* Length = 723

 Score = 46.3 bits (109), Expect = 3e-06
 Identities = 32/196 (16%), Positives = 72/196 (36%), Gaps = 20/196 (10%)

Query: 40  LNRLDEAVQLFEKLTCVQLKPNSITFTI-LIDAFCKEGRMDDATMMFSKMLEKGPKANVV 98
              ++EAV+L+ K   +++ P        L     ++G++ +A M + + +   P     
Sbjct: 22  QGNIEEAVRLYRKA--LEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFAD 78

Query: 99  TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIV-SYSILIDGLCKRGLMEEALYAFHC 157
            YS + +   + Q+++ A   Y    +  I+P    ++S L       G + EA+ ++  
Sbjct: 79  AYSNMGNTLKEMQDVQGALQCYTRAIQ--INPAFADAHSNLASIHKDSGNIPEAIASYRT 136

Query: 158 ALDNHLLPD--------VVTYAILIRGYCKAGRPTEAMQL---YDSMLRNGIMPDGLLLS 206
           AL   L PD             I+        R  + + +        R   +     + 
Sbjct: 137 AL--KLKPDFPDAYCNLAHCLQIVCDWTDYDERMKKLVSIVADQLEKNRLPSVHPHHSML 194

Query: 207 TLADYNLQSSGSQEHC 222
               +  + + ++ H 
Sbjct: 195 YPLSHGFRKAIAERHG 210

>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 Length = 450

 Score = 45.4 bits (108), Expect = 5e-06
 Identities = 28/177 (15%), Positives = 56/177 (31%), Gaps = 25/177 (14%)

Query: 37  YCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDDATMMFSKMLEKGPK- 94
           + ++ +   A+    K   +QLK +             K+G++D+A   F K+L+  P  
Sbjct: 70  FLAMGKSKAALPDLTK--VIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSE 127

Query: 95  -------------ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVS-YSILID 140
                          +          F S +  +A    +++ E  +         +  +
Sbjct: 128 NEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILE--VCVWDAELRELRAE 185

Query: 141 GLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRG--YCKAGRPTEAMQLYDSMLR 195
              K G   +A+     A    L  D  T A       Y + G    ++      L+
Sbjct: 186 CFIKEGEPRKAISDLKAAS--KLKND-NTEAFYKISTLYYQLGDHELSLSEVRECLK 239

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae} Length = 258

 Score = 44.9 bits (107), Expect = 6e-06
 Identities = 27/186 (14%), Positives = 59/186 (31%), Gaps = 20/186 (10%)

Query: 37  YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN 96
           +    + DEA++ + K    +L  +         A  ++G  + A    +  +E+G +  
Sbjct: 15  FYKARQFDEAIEHYNK--AWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGRE-M 71

Query: 97  VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFH 156
              Y  +   + +  N        ++  E       ++     D L K    E+ L    
Sbjct: 72  RADYKVISKSFARIGNAYHKLGDLKKTIEYY--QKSLTEHRTADILTKLRNAEKELKKAE 129

Query: 157 CALDNHLLPDVVTYAILIRG--YCKAGRPTEAMQLYDSMLRNGIMPD--------GLLLS 206
                 + P+       + G  Y        A++ Y  M++    P+           L+
Sbjct: 130 AEAY--VNPEKA-EEARLEGKEYFTKSDWPNAVKAYTEMIK--RAPEDARGYSNRAAALA 184

Query: 207 TLADYN 212
            L  + 
Sbjct: 185 KLMSFP 190

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus} Length = 208

 Score = 44.4 bits (105), Expect = 6e-06
 Identities = 24/171 (14%), Positives = 53/171 (30%), Gaps = 8/171 (4%)

Query: 9   DAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTI 67
           D     +    D+  E        +   Y      D+A   +++L  +Q  PN++     
Sbjct: 36  DRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKEL--LQKAPNNVDCLEA 93

Query: 68  LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF-KSQNMKSAFDVYEEMCEN 126
             +     G+  DA  M+ K+L+     N+     L + Y+  ++  K   +   +   +
Sbjct: 94  CAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAEQEKKKLETDYKKLSS 152

Query: 127 NISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGY 177
             +    +              E+A  +    +     P       L +  
Sbjct: 153 P-TKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTLDKIL 200

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus} Length = 359

 Score = 43.4 bits (103), Expect = 2e-05
 Identities = 25/173 (14%), Positives = 52/173 (30%), Gaps = 25/173 (14%)

Query: 37  YCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDDATMMFSKMLEKGPK- 94
           + ++ +   A+    K   + LK +             K+G++D+A   F K+L+  P  
Sbjct: 47  FLAMGKSKAALPDLTK--VIALKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSE 104

Query: 95  -------------ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVS-YSILID 140
                          +          F   +  +A    +++ E  +         +  +
Sbjct: 105 QEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILE--VCVWDAELRELRAE 162

Query: 141 GLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRG--YCKAGRPTEAMQLYD 191
              K G   +A+     A    L  D  T A       Y + G    ++    
Sbjct: 163 CFIKEGEPRKAISDLKAAS--KLKSD-NTEAFYKISTLYYQLGDHELSLSEVR 212

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 42.9 bits (101), Expect = 4e-05
 Identities = 33/204 (16%), Positives = 66/204 (32%), Gaps = 18/204 (8%)

Query: 7   HLDAALKLFGQLTDRGLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-T 64
             +    +   L D    P+  +T+  +   Y  +N++ EA + F K     + P     
Sbjct: 354 EKNKLYLISNDLVD--RHPEKAVTWLAVGIYYLCVNKISEARRYFSK--SSTMDPQFGPA 409

Query: 65  FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC 124
           +     +F  EG  D A   ++           + Y  L   + +  N+  A +  +   
Sbjct: 410 WIGFAHSFAIEGEHDQAISAYTTAARLFQG-THLPYLFLGMQHMQLGNILLANEYLQSSY 468

Query: 125 ENNISP-NIVSYSILIDGLCKRGLMEEALYAFHCALD-----NHLLPD-VVTYAILIRGY 177
              +   + +  + L      +  M+ A+  F  AL               T+A L   Y
Sbjct: 469 A--LFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAY 526

Query: 178 CKAGRPTEAMQLYDSMLRNGIMPD 201
            K      A+   +  L   +  +
Sbjct: 527 RKLKMYDAAIDALNQGLL--LSTN 548

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 39.1 bits (91), Expect = 7e-04
 Identities = 20/190 (10%), Positives = 56/190 (29%), Gaps = 23/190 (12%)

Query: 37  YCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDDATMM---FSKMLEKG 92
           Y +L+  D A + +++   + +       F  L+         +   ++   +S   ++ 
Sbjct: 210 YTNLSNFDRAKECYKE--ALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKED 267

Query: 93  PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEAL 152
                  Y   ++       ++ A D       N +  +        D L  R    + L
Sbjct: 268 AAFLRSLYMLKLNKTSHEDELRRAEDYLS--SINGLEKSSDLLLCKADTLFVRSRFIDVL 325

Query: 153 YAFHCALDNHLLPDVVTYAILIRGYC--KAGRPTEAMQLYDSMLRNGIMPD--------G 202
                 L+    P  +     +      ++G   +   + + ++     P+        G
Sbjct: 326 AITTKILEID--PYNLD-VYPLHLASLHESGEKNKLYLISNDLVD--RHPEKAVTWLAVG 380

Query: 203 LLLSTLADYN 212
           +    +   +
Sbjct: 381 IYYLCVNKIS 390

>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* Length = 568

 Score = 42.1 bits (99), Expect = 7e-05
 Identities = 15/162 (9%), Positives = 42/162 (25%), Gaps = 13/162 (8%)

Query: 8   LDAALKLFGQLTDRGLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TF 65
               L            P   + +  +      +          ++   + L P      
Sbjct: 5   GPRELLQLRAAVR--HRPQDFVAWLMLADAELGMGDTTAGEMAVQR--GLALHPGHPEAV 60

Query: 66  TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE 125
             L      + R  +A ++  +  +  P+ +      L      +   ++A   Y    +
Sbjct: 61  ARLGRVRWTQQRHAEAAVLLQQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQ 119

Query: 126 NNISPNIVS-YSILIDGL---CKRGLMEEALYAFHCALDNHL 163
             + P      + L++     C    ++        A+   +
Sbjct: 120 --LLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQGV 159

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 39.7 bits (92), Expect = 4e-04
 Identities = 31/196 (15%), Positives = 59/196 (30%), Gaps = 44/196 (22%)

Query: 1   MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
           +   + + DAAL+   Q              T+      L+RLD A +  +K+       
Sbjct: 110 IYFYDQNPDAALRTLHQGDSLEC-----MAMTVQI-LLKLDRLDLARKELKKM--QDQDE 161

Query: 61  NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY 120
           ++                                      +  +      + ++ A+ ++
Sbjct: 162 DA--------------------------------TLTQLATAWVSLAAGGEKLQDAYYIF 189

Query: 121 EEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLP-DVVTYAILIRGYCK 179
           +EM +   SP ++  +        +G  E A      ALD         T   L+     
Sbjct: 190 QEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALD--KDSGHPETLINLVVLSQH 246

Query: 180 AGRPTEAMQLYDSMLR 195
            G+P E    Y S L+
Sbjct: 247 LGKPPEVTNRYLSQLK 262

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	223
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	99.94
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.94
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.9
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.89
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.88
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.88
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.87
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.87
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.87
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.87
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.87
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.87
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.87
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.87
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.86
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.86
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.85
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.85
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.84
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.84
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.81
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.81
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.81
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.81
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.8
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.79
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.79
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.79
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.79
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.79
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.78
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.77
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.77
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.77
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.77
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.77
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.77
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.76
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.76
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.76
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.75
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.75
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.74
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.74
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.73
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.73
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.73
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.73
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.72
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.71
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.7
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.69
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.68
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.67
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.66
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.64
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.64
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.63
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.61
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.61
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.6
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.6
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.59
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.59
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.59
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.59
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.58
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.58
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.57
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.57
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.57
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.57
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.57
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.56
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.56
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.55
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.54
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.54
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.54
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.54
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.53
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.52
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.52
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.52
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.52
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.52
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.51
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.51
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.51
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.5
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.49
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.49
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.47
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.47
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.47
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.43
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.43
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.43
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.42
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.41
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.39
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.39
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.38
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.38
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.37
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.37
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.37
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.36
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.36
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.36
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.36
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.35
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.35
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.34
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.34
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.34
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.34
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.33
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.33
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.33
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.32
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.32
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.32
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.31
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.31
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.31
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.3
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.3
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.29
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.29
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.29
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	99.28
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.28
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	99.27
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.27
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.26
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	99.26
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.25
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	99.25
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	99.23
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.22
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	99.21
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	99.2
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.19
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	99.19
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	99.17
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	99.17
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	99.16
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	99.15
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	99.15
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	99.15
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	99.14
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	99.14
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	99.14
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	99.12
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.12
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	99.1
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	99.1
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	99.09
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	99.09
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.08
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	99.06
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	99.06
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	99.04
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	99.03
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	99.03
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.03
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.03
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.02
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	99.01
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	99.0
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	99.0
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	99.0
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	99.0
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.0
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.99
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.99
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.97
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.97
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.96
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.94
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.93
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.92
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.85
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.82
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.79
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.75
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.74
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.72
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.71
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.71
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.71
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.7
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.69
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.66
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.65
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.65
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.6
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.55
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.39
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.38
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	98.38
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	98.24
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	98.09
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	98.09
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.07
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	98.02
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.02
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	98.01
1pc2_A	152	Mitochondria fission protein; unknown function; NM	98.0
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	98.0
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	98.0
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.9
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.89
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.86
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.81
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.8
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.71
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.65
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	97.49
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.48
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.33
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.31
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	97.26
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	97.24
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	97.2
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	97.08
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.88
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	96.59
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	96.56
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	96.49
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	96.25
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.21
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	96.18
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	95.73
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.55
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	95.46
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.29
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	95.13
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.99
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.8
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.59
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	94.31
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	94.27
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.14
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	94.12
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	94.07
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	93.78
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.77
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	93.47
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.3
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	93.08
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	91.4
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	91.3
2p58_C	116	Putative type III secretion protein YSCG; type III	91.11
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	91.02
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	87.89
3kae_A	242	CDC27, possible protein of nuclear scaffold; tetra	86.61
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	86.11
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	85.41
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	85.35
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	85.32
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	83.87
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	83.4
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	83.13
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	82.2
3eyy_A	145	Putative iron uptake regulatory protein; NUR, nick	80.98
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	80.82
2p58_C	116	Putative type III secretion protein YSCG; type III	80.18

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=2.7e-39  Score=245.98  Aligned_cols=206  Identities=12%  Similarity=0.165  Sum_probs=182.5

Q ss_pred             HHHHHHHHHhhCCCCcCH-HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCC---------hh
Q 027412           10 AALKLFGQLTDRGLEPDI-ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR---------MD   79 (223)
Q Consensus        10 ~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~   79 (223)
                      .+..+.+++.+++..+++ ..++.+|..|++.|++++|.++|++|.+.|+.||..+|+.|+.+|++.+.         ++
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            355566777777665554 46889999999999999999999999999999999999999999987665         67


Q ss_pred             HHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      +|.++|++|...|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.
T Consensus        88 ~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           88 RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhc
Q 027412          160 DNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQS  215 (223)
Q Consensus       160 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  215 (223)
                      +.|+.||..+|+.|+.+|++.|++++|.+++++|.+.|+.|+..||+.++..|...
T Consensus       168 ~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          168 ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999988764

>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=1.2e-36  Score=231.50  Aligned_cols=180  Identities=16%  Similarity=0.216  Sum_probs=173.9

Q ss_pred             CcccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCc---------hhHHHHHHHHHHhCCCCCcHHHHHHHHHH
Q 027412            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNR---------LDEAVQLFEKLTCVQLKPNSITFTILIDA   71 (223)
Q Consensus         1 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   71 (223)
                      +|++.|++++|+++|++|.+.|++||..+|+.||.+|++.+.         +++|.++|++|.+.|+.||..+|+.|+.+
T Consensus        35 ~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~  114 (501)
T 4g26_A           35 MCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARL  114 (501)
T ss_dssp             HTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            478999999999999999999999999999999999987654         68899999999999999999999999999


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHH
Q 027412           72 FCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEA  151 (223)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  151 (223)
                      |++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|
T Consensus       115 ~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A  194 (501)
T 4g26_A          115 AVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKV  194 (501)
T ss_dssp             HHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 027412          152 LYAFHCALDNHLLPDVVTYAILIRGYCKA  180 (223)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  180 (223)
                      .+++++|.+.+..|+..||+.++..|...
T Consensus       195 ~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          195 YKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999998764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.94  E-value=7.9e-25  Score=170.97  Aligned_cols=214  Identities=9%  Similarity=0.007  Sum_probs=169.7

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      .+.|++++|+++|+++.+.+. .+..++..++.++.+.|++++|..+++++.+.. +.+..+++.++.+|.+.|++++|.
T Consensus       316 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  393 (597)
T 2xpi_A          316 FVRSRFIDVLAITTKILEIDP-YNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEAR  393 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT-TCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHH
Confidence            445556666666665555432 244455555666666666666666666555433 346788888999999999999999


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ++|+++.+..+. +..+|+.++.+|.+.|++++|..+|+++.+.+ +.+..+++.++.+|.+.|++++|.++|+++.+..
T Consensus       394 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  471 (597)
T 2xpi_A          394 RYFSKSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF  471 (597)
T ss_dssp             HHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999999887665 78899999999999999999999999998875 6688899999999999999999999999998766


Q ss_pred             CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC----CCCCc--hhhHHHHhhhHhhcCCCccc
Q 027412          163 LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN----GIMPD--GLLLSTLADYNLQSSGSQEH  221 (223)
Q Consensus       163 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~~~~~~~  221 (223)
                      + .+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..++..+...|.+.|+.+++
T Consensus       472 ~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A  535 (597)
T 2xpi_A          472 Q-YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAA  535 (597)
T ss_dssp             C-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHH
T ss_pred             C-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHH
Confidence            5 47889999999999999999999999999876    66787  67899999999988876543

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.94  E-value=2.6e-24  Score=168.05  Aligned_cols=215  Identities=17%  Similarity=0.095  Sum_probs=182.9

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      |.+.|++++|+++|+++.+.. +.+..++..++.+|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|
T Consensus       349 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A  426 (597)
T 2xpi_A          349 LHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQA  426 (597)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            457789999999999988664 4478889999999999999999999999988754 33678899999999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      +++|+++.+.++. +..+|..++.+|.+.|++++|.++|+++.+.. +.+..+|+.++..|.+.|++++|.++|+++.+.
T Consensus       427 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  504 (597)
T 2xpi_A          427 ISAYTTAARLFQG-THLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLL  504 (597)
T ss_dssp             HHHHHHHHHTTTT-CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            9999999887665 78889999999999999999999999998765 667889999999999999999999999998765


Q ss_pred             ----CCCCC--HHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCccc
Q 027412          162 ----HLLPD--VVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  221 (223)
Q Consensus       162 ----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~~  221 (223)
                          +..|+  ..+|..++.+|.+.|++++|.+.++++.+.+ +.+..++..+...|.+.|+.+++
T Consensus       505 ~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A  569 (597)
T 2xpi_A          505 VKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLA  569 (597)
T ss_dssp             HHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHH
Confidence                55676  7899999999999999999999999998853 33677888888888888876543

>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=99.90  E-value=5.9e-21  Score=141.84  Aligned_cols=210  Identities=19%  Similarity=0.191  Sum_probs=135.6

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      ...|++++|++.|+++.+.. +.+..+|..+..++...|++++|...|+++.+.++. +...+..+...+...|++++|.
T Consensus       146 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~  223 (388)
T 1w3b_A          146 KALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAV  223 (388)
T ss_dssp             HTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHH
T ss_pred             HHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHH
Confidence            34567777777777766653 224566777777777777777777777776655422 4555666666666666666666


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ..+++.....+. +..++..+..++...|++++|...++++.+.+ +.+..++..++..+.+.|++++|.+.++++.+..
T Consensus       224 ~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  301 (388)
T 1w3b_A          224 AAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC  301 (388)
T ss_dssp             HHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            666666665544 55666667777777777777777777776654 4455666777777777777777777777766654


Q ss_pred             CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhhcCCCc
Q 027412          163 LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQ  219 (223)
Q Consensus       163 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~  219 (223)
                      + .+..++..+...+...|++++|...++++.+.  .|+ ..++..+...+.+.|+.+
T Consensus       302 p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~  356 (388)
T 1w3b_A          302 P-THADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQ  356 (388)
T ss_dssp             T-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCH
T ss_pred             c-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHH
Confidence            3 45666677777777777777777777776653  333 445666666666655544

>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=6.1e-20  Score=136.39  Aligned_cols=205  Identities=17%  Similarity=0.140  Sum_probs=179.7

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|+..|+++.+.++ .+...+..+..++...|++++|...+++.....+. +..++..+..++.+.|++++|
T Consensus       179 ~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A  256 (388)
T 1w3b_A          179 FNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLA  256 (388)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHH
Confidence            4578999999999999998753 36788999999999999999999999999877533 678899999999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      ...|+++.+.++. +..+|..+..++.+.|++++|...++++.+.. +.+..++..++..+...|++++|.+.++++.+.
T Consensus       257 ~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  334 (388)
T 1w3b_A          257 IDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV  334 (388)
T ss_dssp             HHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            9999999998776 77889999999999999999999999999875 778899999999999999999999999999887


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCch-hhHHHHhhhHh
Q 027412          162 HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDG-LLLSTLADYNL  213 (223)
Q Consensus       162 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~  213 (223)
                      .+ .+..++..+..++...|++++|...++++.+  +.|+. ..+..+-..+.
T Consensus       335 ~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~a~~~lg~~~~  384 (388)
T 1w3b_A          335 FP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTLK  384 (388)
T ss_dssp             CT-TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHHH
T ss_pred             CC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCHHHHHhHHHHHH
Confidence            54 4688999999999999999999999999998  46664 44444444443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.88  E-value=1.9e-20  Score=128.42  Aligned_cols=186  Identities=16%  Similarity=0.061  Sum_probs=103.5

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhc-------
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE-------   75 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------   75 (223)
                      .+.|++++|+..|++..+.. +.+...+..+..++.+.|++++|+..+++..+..+. +...+..+..++...       
T Consensus        16 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~~   93 (217)
T 2pl2_A           16 YALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMVLSEAYVALYRQAEDR   93 (217)
T ss_dssp             HHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHTCSSH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhhhhhhhh
Confidence            44566666666666666553 224556666666666666666666666666555422 455566666666666       


Q ss_pred             ----CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHH
Q 027412           76 ----GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEA  151 (223)
Q Consensus        76 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  151 (223)
                          |++++|+..+++..+..|. +...+..+..++...|++++|...|+++.+.+  .+...+..+..++...|++++|
T Consensus        94 ~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A  170 (217)
T 2pl2_A           94 ERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEA  170 (217)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHH
Confidence                6666666666666665554 55566666666666666666666666666554  4555666666666666666666


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 027412          152 LYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSML  194 (223)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  194 (223)
                      ...|++..+..+ .+...+..+..++...|++++|...+++..
T Consensus       171 ~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          171 LAQYAKALEQAP-KDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHHST-TCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHHHhCC-CChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            666666665543 245556666666666666666666665543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.88  E-value=9.2e-21  Score=139.68  Aligned_cols=212  Identities=16%  Similarity=0.114  Sum_probs=172.6

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|...|+++.+..+ .+..++..+..+|...|++++|
T Consensus        75 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A  152 (365)
T 4eqf_A           75 RLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQP-NNLKALMALAVSYTNTSHQQDA  152 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHccccHHHH
Confidence            457899999999999998875 34788999999999999999999999999988753 3688999999999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHH----------HHHHHHHHhhCChhHHHHHHHHHHHCCCCC--ChhHHHHHHHHHHhcCCHH
Q 027412           82 TMMFSKMLEKGPKANVVTY----------SCLIDGYFKSQNMKSAFDVYEEMCENNISP--NIVSYSILIDGLCKRGLME  149 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~----------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~  149 (223)
                      ...++++.+..+. +...+          ..+...+...|++++|...++++.+.. +.  +..++..++..+...|+++
T Consensus       153 ~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~~~~g~~~  230 (365)
T 4eqf_A          153 CEALKNWIKQNPK-YKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLGVLFHLSGEFN  230 (365)
T ss_dssp             HHHHHHHHHHCHH-HHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHhCcc-chHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHHHHHHHCCCHH
Confidence            9999999887543 22233          345788899999999999999998864 33  6788999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhhcCCCcc
Q 027412          150 EALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       150 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~  220 (223)
                      +|.+.++++.+..+ .+..+|..+..++...|++++|...++++.+.  .|+ ...+..+...+.+.|+.++
T Consensus       231 ~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          231 RAIDAFNAALTVRP-EDYSLWNRLGATLANGDRSEEAVEAYTRALEI--QPGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHCCCHHH
Confidence            99999999988765 47889999999999999999999999999884  455 5677777778887776554

>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=3.5e-22  Score=158.51  Aligned_cols=150  Identities=10%  Similarity=0.098  Sum_probs=116.7

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHh---cCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHH
Q 027412           62 SITFTILIDAFCKEGRMDDATMMFSKMLE---KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSIL  138 (223)
Q Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  138 (223)
                      ..+|++|+++|++.|++++|.++|++|.+   .|+.||..|||+||.+|++.|+.++|.++|++|.+.|+.||..||+++
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            45899999999999999999999987753   578889999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc------hhhHHHHhhh
Q 027412          139 IDGLCKRGL-MEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD------GLLLSTLADY  211 (223)
Q Consensus       139 ~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~------~~~~~~l~~~  211 (223)
                      |.++++.|+ .++|.++|++|.+.|+.||..+|+.++....+.    .+++..+++ ..++.|+      ..+...|.+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl  281 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHH
Confidence            999999887 478889999999999999999998887655553    344444444 3345554      3344445555


Q ss_pred             HhhcC
Q 027412          212 NLQSS  216 (223)
Q Consensus       212 ~~~~~  216 (223)
                      |.+.+
T Consensus       282 ~s~d~  286 (1134)
T 3spa_A          282 YAKDG  286 (1134)
T ss_dssp             HCCCS
T ss_pred             HccCC
Confidence            54443

>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=7.7e-22  Score=156.57  Aligned_cols=120  Identities=13%  Similarity=0.225  Sum_probs=111.0

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHH---CCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCE---NNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAI  172 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  172 (223)
                      -..+|++++.+|++.|+.++|..+|++|.+   .|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++
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            356899999999999999999999988764   47899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCc-chHHHHHHHHHHCCCCCchhhHHHHhhhHhhc
Q 027412          173 LIRGYCKAGRP-TEAMQLYDSMLRNGIMPDGLLLSTLADYNLQS  215 (223)
Q Consensus       173 l~~~~~~~g~~-~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  215 (223)
                      +|.++++.|+. ++|.++|++|.+.|+.||..+|++++..+-+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~  249 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA  249 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH
Confidence            99999999985 78999999999999999999999777665543

>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=99.87  E-value=1.9e-19  Score=132.59  Aligned_cols=214  Identities=16%  Similarity=0.084  Sum_probs=170.1

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|...++++.+..+ .+..++..+..++...|++++|
T Consensus        74 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A  151 (368)
T 1fch_A           74 RLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFTNESLQRQA  151 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHH
Confidence            456789999999999998875 34678889999999999999999999999887753 3778888899999999999988


Q ss_pred             HHHHHHHHhcCCC-----------------------------------------------c---cHHHHHHHHHHHHhhC
Q 027412           82 TMMFSKMLEKGPK-----------------------------------------------A---NVVTYSCLIDGYFKSQ  111 (223)
Q Consensus        82 ~~~~~~~~~~~~~-----------------------------------------------~---~~~~~~~l~~~~~~~~  111 (223)
                      ...++++....+.                                               |   +..++..+..++...|
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g  231 (368)
T 1fch_A          152 CEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSG  231 (368)
T ss_dssp             HHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcC
Confidence            8888877665432                                               1   3567777888888888


Q ss_pred             ChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHH
Q 027412          112 NMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYD  191 (223)
Q Consensus       112 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  191 (223)
                      ++++|...++++.... +.+..++..++..+...|++++|...++++.+..+ .+...+..+..++...|++++|...++
T Consensus       232 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~  309 (368)
T 1fch_A          232 EYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRSRYNLGISCINLGAHREAVEHFL  309 (368)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            8888888888888764 55677888888888888888888888888877654 467788888888888888888888888


Q ss_pred             HHHHCCCCCc------------hhhHHHHhhhHhhcCCCccc
Q 027412          192 SMLRNGIMPD------------GLLLSTLADYNLQSSGSQEH  221 (223)
Q Consensus       192 ~~~~~~~~p~------------~~~~~~l~~~~~~~~~~~~~  221 (223)
                      ++.+.  .|+            ..++..+..++.+.|..+++
T Consensus       310 ~al~~--~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  349 (368)
T 1fch_A          310 EALNM--QRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAY  349 (368)
T ss_dssp             HHHHH--HHTC------CCCCCHHHHHHHHHHHHHHTCGGGH
T ss_pred             HHHHh--CCCCCCccccccchhhHHHHHHHHHHHHhCChHhH
Confidence            88764  222            46777777777777766543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.87  E-value=1.1e-19  Score=126.32  Aligned_cols=202  Identities=17%  Similarity=0.181  Sum_probs=168.8

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +...|++++|+..|+++.+.. +.+...+..+..++...|++++|...++++.+... .+..++..+...+...|++++|
T Consensus        33 ~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A  110 (243)
T 2q7f_A           33 GSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGNVYVVKEMYKEA  110 (243)
T ss_dssp             ---------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHhccHHHH
Confidence            567899999999999998864 34688899999999999999999999999987753 3778899999999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      ...++++.+..+. +...+..+...+...|++++|...++++.+.. +.+...+..++..+...|++++|...++++.+.
T Consensus       111 ~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  188 (243)
T 2q7f_A          111 KDMFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQ  188 (243)
T ss_dssp             HHHHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999998765 77889999999999999999999999998874 667889999999999999999999999999887


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhh
Q 027412          162 HLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLAD  210 (223)
Q Consensus       162 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  210 (223)
                      .+ .+..++..+..++...|++++|...++++.+.  .|+.......+.
T Consensus       189 ~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~  234 (243)
T 2q7f_A          189 DP-GHADAFYNAGVTYAYKENREKALEMLDKAIDI--QPDHMLALHAKK  234 (243)
T ss_dssp             CT-TCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH--CTTCHHHHHHHT
T ss_pred             Cc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc--CcchHHHHHHHH
Confidence            65 46889999999999999999999999999984  566544433333

>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=1e-19  Score=137.51  Aligned_cols=197  Identities=16%  Similarity=0.156  Sum_probs=171.3

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...|+++.+.++. +..++..++.+|.+.|++++|
T Consensus        36 ~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A  113 (450)
T 2y4t_A           36 LLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD-FTAARLQRGHLLLKQGKLDEA  113 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHH
Confidence            567899999999999998864 447889999999999999999999999999887633 688899999999999999999


Q ss_pred             HHHHHHHHhcCCCccH---HHHHHH------------HHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC
Q 027412           82 TMMFSKMLEKGPKANV---VTYSCL------------IDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG  146 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  146 (223)
                      ...|+++.+.++. +.   ..+..+            ...+...|++++|...++++.+.. +.+..++..++.+|.+.|
T Consensus       114 ~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  191 (450)
T 2y4t_A          114 EDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEG  191 (450)
T ss_dssp             HHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCC
Confidence            9999999987665 44   555555            455899999999999999999875 678889999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhH
Q 027412          147 LMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLL  205 (223)
Q Consensus       147 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  205 (223)
                      ++++|.+.++++.+..+ .+..++..++.++...|++++|...++++.+.  .|+....
T Consensus       192 ~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~  247 (450)
T 2y4t_A          192 EPRKAISDLKAASKLKN-DNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRC  247 (450)
T ss_dssp             CGGGGHHHHHHHHHHHC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             CHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHH
Confidence            99999999999987654 57889999999999999999999999999974  5655443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.87  E-value=1.8e-19  Score=123.59  Aligned_cols=191  Identities=18%  Similarity=0.117  Sum_probs=164.0

Q ss_pred             CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHH
Q 027412           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (223)
Q Consensus        24 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (223)
                      +++...+..+...+.+.|++++|...|++..+..+. +...+..+..++.+.|++++|+..+++..+.+|. +...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHH
Confidence            456778999999999999999999999999987643 7888999999999999999999999999999877 78899999


Q ss_pred             HHHHHhh-----------CChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 027412          104 IDGYFKS-----------QNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAI  172 (223)
Q Consensus       104 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  172 (223)
                      ..++...           |++++|...+++..+.. |.+...+..+..++...|++++|+..|++..+..  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            9999999           99999999999999875 6678899999999999999999999999999877  68899999


Q ss_pred             HHHHHHhcCCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhhcCCCccc
Q 027412          173 LIRGYCKAGRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQEH  221 (223)
Q Consensus       173 l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~~  221 (223)
                      +..++...|++++|...|++..+.  .|+ ...+..+...+.+.|+.+++
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A  204 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQ--APKDLDLRVRYASALLLKGKAEEA  204 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTC-------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHH
Confidence            999999999999999999999984  565 45566666677777665543

>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=1.2e-19  Score=137.09  Aligned_cols=189  Identities=15%  Similarity=0.079  Sum_probs=106.2

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcH---HHHHHH----------
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS---ITFTIL----------   68 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l----------   68 (223)
                      +.+.|++++|+..|+++.+.+ +.+..++..+..++.+.|++++|...|+++.+..+. +.   ..+..+          
T Consensus        70 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~  147 (450)
T 2y4t_A           70 FLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLR  147 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHH
Confidence            345667777777777766654 224566667777777777777777777776655322 22   333333          


Q ss_pred             --HHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC
Q 027412           69 --IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG  146 (223)
Q Consensus        69 --~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  146 (223)
                        ...+...|++++|...|+++....+. +..++..++.+|...|++++|...|+++.+.. +.+..++..++.+|...|
T Consensus       148 ~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  225 (450)
T 2y4t_A          148 SQALNAFGSGDYTAAIAFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLG  225 (450)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence              33355566666666666666655443 55555556666666666666666666655442 344555555555566666


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHH------------HHHHHhcCCcchHHHHHHHHHH
Q 027412          147 LMEEALYAFHCALDNHLLPDVVTYAIL------------IRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       147 ~~~~a~~~~~~~~~~~~~~~~~~~~~l------------~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      ++++|...++++....+ .+...+..+            +..+...|++++|...|+++.+
T Consensus       226 ~~~~A~~~~~~~~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~  285 (450)
T 2y4t_A          226 DHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMK  285 (450)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCC-ChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            66666665555554332 123333322            4455555555555555555554

>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=99.87  E-value=3.7e-19  Score=124.51  Aligned_cols=201  Identities=10%  Similarity=-0.021  Sum_probs=171.0

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +...|++++|+..|+++.+.. +.+...+..+..++...|++++|...++++.+... .+...+..+...+...|++++|
T Consensus        47 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A  124 (252)
T 2ho1_A           47 YLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGFLYEQKRYEEA  124 (252)
T ss_dssp             HHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHHhHHHHH
Confidence            456789999999999988764 33678899999999999999999999999987653 3678888999999999999999


Q ss_pred             HHHHHHHHh--cCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           82 TMMFSKMLE--KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        82 ~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      .+.++++..  ..+. +...+..+..++...|++++|...++++.+.. +.+...+..++..+...|++++|...++++.
T Consensus       125 ~~~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  202 (252)
T 2ho1_A          125 YQRLLEASQDTLYPE-RSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLFA  202 (252)
T ss_dssp             HHHHHHHTTCTTCTT-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCccCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999988  3333 67788889999999999999999999998865 5668889999999999999999999999998


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHh
Q 027412          160 DNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLA  209 (223)
Q Consensus       160 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  209 (223)
                      +..+ .+...+..+...+...|++++|.+.++++.+.  .|+...+..++
T Consensus       203 ~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l  249 (252)
T 2ho1_A          203 QGGG-QNARSLLLGIRLAKVFEDRDTAASYGLQLKRL--YPGSLEYQEFQ  249 (252)
T ss_dssp             TTSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSHHHHHHH
T ss_pred             HhCc-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCCHHHHHHH
Confidence            8665 57788889999999999999999999999884  66665554443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.86  E-value=1.1e-18  Score=119.82  Aligned_cols=203  Identities=12%  Similarity=0.013  Sum_probs=170.9

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhc-CChhH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE-GRMDD   80 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~   80 (223)
                      +...|++++|++.|+++.+.. +.+...+..+..++...|++++|...++++.+... .+..++..+...+... |++++
T Consensus        18 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~~   95 (225)
T 2vq2_A           18 YMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKP-DSAEINNNYGWFLCGRLNRPAE   95 (225)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCCHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhcCcHHH
Confidence            457899999999999998874 33678899999999999999999999999987653 3678889999999999 99999


Q ss_pred             HHHHHHHHHhcCCC-ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           81 ATMMFSKMLEKGPK-ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        81 a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      |...++++.+.+.. .+...+..+..++...|++++|...++++.+.. +.+...+..++..+...|++++|...++++.
T Consensus        96 A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  174 (225)
T 2vq2_A           96 SMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQ  174 (225)
T ss_dssp             HHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999999882212 246788889999999999999999999998864 5568889999999999999999999999988


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHh
Q 027412          160 DNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLA  209 (223)
Q Consensus       160 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  209 (223)
                      +..+..+...+..+...+...|+.+++..+++.+.+.  .|+......++
T Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~l  222 (225)
T 2vq2_A          175 SRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQTVL  222 (225)
T ss_dssp             HHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHh
Confidence            7654246777888888899999999999999998863  67766655544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.86  E-value=2.3e-19  Score=125.69  Aligned_cols=205  Identities=16%  Similarity=0.146  Sum_probs=169.9

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC--Cc----HHHHHHHHHHHHhc
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK--PN----SITFTILIDAFCKE   75 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~~l~~~~~~~   75 (223)
                      +...|++++|+..|+++.+..  .+...+..+..++...|++++|...+++..+....  ++    ..++..+..++...
T Consensus        15 ~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~   92 (258)
T 3uq3_A           15 FYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKL   92 (258)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHc
Confidence            457899999999999998886  67889999999999999999999999998765321  11    57889999999999


Q ss_pred             CChhHHHHHHHHHHhcCC-------------------------CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCC
Q 027412           76 GRMDDATMMFSKMLEKGP-------------------------KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP  130 (223)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~-------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  130 (223)
                      |++++|...+++..+..+                         +.+...+..+...+...|++++|...++++.+.. +.
T Consensus        93 ~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~  171 (258)
T 3uq3_A           93 GDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PE  171 (258)
T ss_dssp             TCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             ccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cc
Confidence            999999999999988432                         1245678888999999999999999999998875 66


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCC----CCCchhhHH
Q 027412          131 NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNG----IMPDGLLLS  206 (223)
Q Consensus       131 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~p~~~~~~  206 (223)
                      +..++..+..++...|++++|...++++.+..+ .+...+..+..++...|++++|...+++..+..    ..|+.....
T Consensus       172 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~  250 (258)
T 3uq3_A          172 DARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREID  250 (258)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHH
T ss_pred             cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCH-HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHH
Confidence            788899999999999999999999999988765 467889999999999999999999999988742    116655444


Q ss_pred             HHhh
Q 027412          207 TLAD  210 (223)
Q Consensus       207 ~l~~  210 (223)
                      ..+.
T Consensus       251 ~~l~  254 (258)
T 3uq3_A          251 QLYY  254 (258)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.85  E-value=4.4e-19  Score=128.57  Aligned_cols=214  Identities=14%  Similarity=0.020  Sum_probs=182.6

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcC-ChhH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG-RMDD   80 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~   80 (223)
                      +...|++++|+++|+++.+..+ .+...+..++.++...|++++|..+++++.+..+ .+..++..+...+...| ++++
T Consensus        32 ~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~  109 (330)
T 3hym_B           32 HYYNCDFKMCYKLTSVVMEKDP-FHASCLPVHIGTLVELNKANELFYLSHKLVDLYP-SNPVSWFAVGCYYLMVGHKNEH  109 (330)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT-TCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSTHHHHHHHHHHHHSCSCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHcCC-CChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhhhhHHH
Confidence            4567999999999999988753 3566777888999999999999999999987653 36778889999999999 9999


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      |...|++..+..+. +...|..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+
T Consensus       110 A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  187 (330)
T 3hym_B          110 ARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALS  187 (330)
T ss_dssp             HHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            99999999988765 77889999999999999999999999999875 55677888899999999999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCC--------CCCchhhHHHHhhhHhhcCCCcc
Q 027412          161 NHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNG--------IMPDGLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       161 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--------~~p~~~~~~~l~~~~~~~~~~~~  220 (223)
                      ..+ .+...+..+...+...|++++|...++++.+..        ...+...+..+...+.+.|..++
T Consensus       188 ~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          188 IAP-EDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             TCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             hCC-CChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            765 478899999999999999999999999998741        12334677777778877776543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.85  E-value=4.6e-20  Score=135.93  Aligned_cols=212  Identities=11%  Similarity=0.040  Sum_probs=171.4

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC---------cHHHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP---------NSITFTILIDAF   72 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------~~~~~~~l~~~~   72 (223)
                      |.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|...++++.+..+..         ....+..+...+
T Consensus       109 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~  187 (365)
T 4eqf_A          109 QAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSP  187 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC------------------
T ss_pred             HHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHH
Confidence            567899999999999998875 3368899999999999999999999999998753110         122334568889


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHH
Q 027412           73 CKEGRMDDATMMFSKMLEKGPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEA  151 (223)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  151 (223)
                      ...|++++|...++++.+..+.. +..++..+...+...|++++|...++++.+.. +.+..++..++.+|...|++++|
T Consensus       188 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  266 (365)
T 4eqf_A          188 VDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEA  266 (365)
T ss_dssp             -CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999986642 67889999999999999999999999999875 66788999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc-------------hhhHHHHhhhHhhcCCC
Q 027412          152 LYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD-------------GLLLSTLADYNLQSSGS  218 (223)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-------------~~~~~~l~~~~~~~~~~  218 (223)
                      ...++++.+..+ .+..++..+..++...|++++|...|+++.+.  .|+             ...+..+..++...|..
T Consensus       267 ~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  343 (365)
T 4eqf_A          267 VEAYTRALEIQP-GFIRSRYNLGISCINLGAYREAVSNFLTALSL--QRKSRNQQQVPHPAISGNIWAALRIALSLMDQP  343 (365)
T ss_dssp             HHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH--HHCC------------CHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHhcCC-CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccCCCcccchhhhHHHHHHHHHHHHHHcCcH
Confidence            999999998765 46889999999999999999999999999874  222             56677777777666554

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.85  E-value=6.1e-19  Score=127.83  Aligned_cols=188  Identities=14%  Similarity=0.029  Sum_probs=84.2

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC-chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      +.|++++|+..++++.+.. +.+...+..+...+...| ++++|...++++.+..+. +...+..+..++...|++++|.
T Consensus        68 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~  145 (330)
T 3hym_B           68 ELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAM  145 (330)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHH
T ss_pred             HhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHH
Confidence            3445555555555544432 113444444555555555 455555555555443311 3344444455555555555555


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ..+++..+..+. +...+..+...+...|++++|...++++.+.. +.+..++..++..+...|++++|...++++.+..
T Consensus       146 ~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  223 (330)
T 3hym_B          146 AAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKI  223 (330)
T ss_dssp             HHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHh
Confidence            555544444333 33333444444444444444444444444432 3334444444444444444444444444443311


Q ss_pred             --------CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          163 --------LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       163 --------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                              ......++..+..++...|++++|...+++..+
T Consensus       224 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  264 (330)
T 3hym_B          224 KAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALV  264 (330)
T ss_dssp             TTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence                    011223444444444444444444444444443

>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=99.84  E-value=7.8e-19  Score=127.12  Aligned_cols=213  Identities=13%  Similarity=0.037  Sum_probs=172.3

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|+.+|+++.+.. +.+...+..+..++...|++++|...++++.+.. +.+..++..+...+...|++++|
T Consensus        31 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A  108 (327)
T 3cv0_A           31 MLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAA  108 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHHH
Confidence            456899999999999998875 3378889999999999999999999999998775 33778899999999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHH--------------HH-HHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCL--------------ID-GYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG  146 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  146 (223)
                      ...++++....+. +...+..+              .. .+...|++++|...++++.+.. +.+..++..++..+...|
T Consensus       109 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~  186 (327)
T 3cv0_A          109 LASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSN  186 (327)
T ss_dssp             HHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhc
Confidence            9999999887654 44444443              33 4778889999999999998765 567888999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCcc
Q 027412          147 LMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       147 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  220 (223)
                      ++++|.+.++++.+..+ .+..++..+...+...|++++|...++++.+.. +.+...+..+...+.+.|+.++
T Consensus       187 ~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~  258 (327)
T 3cv0_A          187 NYDSAAANLRRAVELRP-DDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDL  258 (327)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             cHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHH
Confidence            99999999999887654 467888999999999999999999999988742 2345667777777777766543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.84  E-value=4.2e-18  Score=113.64  Aligned_cols=174  Identities=17%  Similarity=0.124  Sum_probs=156.8

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (223)
                      +..+|..+..++...|++++|+..|++..+..+. +..++..+..+|.+.|++++|...+.......+. +...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHH
Confidence            6778999999999999999999999999887644 7888999999999999999999999999988776 7788888999


Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcch
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTE  185 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  185 (223)
                      .+...++++.+...+.+..... +.+...+..+..++.+.|++++|++.|++..+..+ .+..+|..+..++...|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKP-GFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcc-hhhhHHHHHHHHHHHCCCHHH
Confidence            9999999999999999998875 66788999999999999999999999999998776 478899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCchhhH
Q 027412          186 AMQLYDSMLRNGIMPDGLLL  205 (223)
Q Consensus       186 a~~~~~~~~~~~~~p~~~~~  205 (223)
                      |...|++.++  +.|+...|
T Consensus       160 A~~~~~~al~--~~p~~a~~  177 (184)
T 3vtx_A          160 AVKYFKKALE--KEEKKAKY  177 (184)
T ss_dssp             HHHHHHHHHH--TTHHHHHH
T ss_pred             HHHHHHHHHh--CCccCHHH
Confidence            9999999998  46765443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.83  E-value=4.4e-18  Score=124.58  Aligned_cols=194  Identities=16%  Similarity=0.175  Sum_probs=170.3

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|+..|+++.+.. +.+...+..+..++...|++++|...++++.+..+ .+...+..+..++...|++++|
T Consensus        13 ~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A   90 (359)
T 3ieg_A           13 LLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKM-DFTAARLQRGHLLLKQGKLDEA   90 (359)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CcchHHHHHHHHHHHcCChHHH
Confidence            467899999999999998875 34688999999999999999999999999987753 3678899999999999999999


Q ss_pred             HHHHHHHHhcCC---CccHHHHHHH------------HHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC
Q 027412           82 TMMFSKMLEKGP---KANVVTYSCL------------IDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG  146 (223)
Q Consensus        82 ~~~~~~~~~~~~---~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  146 (223)
                      ...+++..+..+   . +...+..+            ...+...|++++|...++++.+.. +.+..++..+...+...|
T Consensus        91 ~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  168 (359)
T 3ieg_A           91 EDDFKKVLKSNPSEQE-EKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEG  168 (359)
T ss_dssp             HHHHHHHHTSCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcCCcccC-hHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCC
Confidence            999999998766   3 55555555            688999999999999999999875 677889999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCch
Q 027412          147 LMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDG  202 (223)
Q Consensus       147 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~  202 (223)
                      ++++|...++++.+..+ .+..++..+...+...|++++|...+++..+.  .|+.
T Consensus       169 ~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~  221 (359)
T 3ieg_A          169 EPRKAISDLKAASKLKS-DNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDH  221 (359)
T ss_dssp             CHHHHHHHHHHHHTTCS-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTC
T ss_pred             CHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--Cccc
Confidence            99999999999998765 57889999999999999999999999999984  4443

>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=6.5e-19  Score=127.53  Aligned_cols=214  Identities=14%  Similarity=0.025  Sum_probs=176.6

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHH-------------
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTIL-------------   68 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------------   68 (223)
                      +.+.|++++|+..|+++.+.. +.+...+..+..++...|++++|...++++.+..+. +...+..+             
T Consensus        65 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  142 (327)
T 3cv0_A           65 QAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQ  142 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TTTC-----------------
T ss_pred             HHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHH
Confidence            457899999999999998874 346888999999999999999999999999877433 22233322             


Q ss_pred             -HH-HHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC
Q 027412           69 -ID-AFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG  146 (223)
Q Consensus        69 -~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  146 (223)
                       .. .+...|++++|...++++.+..+. +...+..+...+...|++++|...++++.+.. +.+..++..++..+...|
T Consensus       143 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  220 (327)
T 3cv0_A          143 SEDFFFAAPNEYRECRTLLHAALEMNPN-DAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGN  220 (327)
T ss_dssp             ---CCTTSHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHhHHHHHcccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcC
Confidence             22 367789999999999999998776 78899999999999999999999999999875 667889999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCC-----------chhhHHHHhhhHhhc
Q 027412          147 LMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMP-----------DGLLLSTLADYNLQS  215 (223)
Q Consensus       147 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p-----------~~~~~~~l~~~~~~~  215 (223)
                      ++++|...++++.+..+ .+...+..+..++...|++++|...++++.+.....           +...+..+..++.+.
T Consensus       221 ~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  299 (327)
T 3cv0_A          221 RPQEALDAYNRALDINP-GYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVM  299 (327)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhc
Confidence            99999999999988765 468899999999999999999999999998752221           356777788888777


Q ss_pred             CCCcc
Q 027412          216 SGSQE  220 (223)
Q Consensus       216 ~~~~~  220 (223)
                      |..++
T Consensus       300 g~~~~  304 (327)
T 3cv0_A          300 NRPDL  304 (327)
T ss_dssp             TCHHH
T ss_pred             CCHHH
Confidence            76543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.83  E-value=1.1e-17  Score=119.66  Aligned_cols=200  Identities=12%  Similarity=0.091  Sum_probs=90.6

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC-cHHHHHHHHHHHHhcCChhHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP-NSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      ...|+++.|+..++.   . -+|+..++..+...+...++.++|++.++++...+..| +...+..+...+...|++++|
T Consensus        45 i~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~A  120 (291)
T 3mkr_A           45 LAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAA  120 (291)
T ss_dssp             HHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            344555555543322   1 13344445555555555555555555555554433222 333444444555555555555


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHH---HHHHHHHHhcCCHHHHHHHHHHH
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSY---SILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      ++.+++      +.+...+..++.++.+.|++++|...++++.+..  |+....   ..++..+...|++++|..+|+++
T Consensus       121 l~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~  192 (291)
T 3mkr_A          121 LRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEM  192 (291)
T ss_dssp             HHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHH
T ss_pred             HHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            555544      1244445555555555555555555555555432  221110   11112222334555555555555


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhhcCC
Q 027412          159 LDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSG  217 (223)
Q Consensus       159 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~  217 (223)
                      .+..+ .+...++.+..++...|++++|...++++++.  .|+ ..++..+...+...|+
T Consensus       193 l~~~p-~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~--~p~~~~~l~~l~~~~~~~g~  249 (291)
T 3mkr_A          193 ADKCS-PTLLLLNGQAACHMAQGRWEAAEGVLQEALDK--DSGHPETLINLVVLSQHLGK  249 (291)
T ss_dssp             HHHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            54432 34445555555555555555555555555442  232 3344444444444443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.81  E-value=8.8e-18  Score=120.09  Aligned_cols=194  Identities=15%  Similarity=0.162  Sum_probs=159.5

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCc-CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      +...|+.++|++.++++...+..| +...+..+..++...|++++|++.+++      +.+..++..++..+.+.|++++
T Consensus        75 ~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~  148 (291)
T 3mkr_A           75 LASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDL  148 (291)
T ss_dssp             HHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHH
T ss_pred             HcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHH
Confidence            456788999999999998775434 567788888999999999999999987      4578889999999999999999


Q ss_pred             HHHHHHHHHhcCCCccHHH--HHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412           81 ATMMFSKMLEKGPKANVVT--YSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      |.+.++++.+.++. +...  ...++..+...|++++|..+|+++.+.. +.+...++.+..++.+.|++++|...++++
T Consensus       149 A~~~l~~~~~~~p~-~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~a  226 (291)
T 3mkr_A          149 ARKELKKMQDQDED-ATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEA  226 (291)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhCcC-cHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999988654 2211  1223344455689999999999999874 778899999999999999999999999999


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCcch-HHHHHHHHHHCCCCCchhhHH
Q 027412          159 LDNHLLPDVVTYAILIRGYCKAGRPTE-AMQLYDSMLRNGIMPDGLLLS  206 (223)
Q Consensus       159 ~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~~~p~~~~~~  206 (223)
                      ++..+ -+..++..++..+...|+.++ +.++++++.+  +.|+.....
T Consensus       227 l~~~p-~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~~~~~~  272 (291)
T 3mkr_A          227 LDKDS-GHPETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRSHPFIK  272 (291)
T ss_dssp             HHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCHHHH
T ss_pred             HHhCC-CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCCChHHH
Confidence            98776 478899999999999999976 6789999988  467655433

>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=1.3e-16  Score=116.78  Aligned_cols=203  Identities=11%  Similarity=0.056  Sum_probs=169.0

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +...|++++|+..|+++.+.. +.+...+..+..++...|++++|...++++.+.. +.+..++..+...+...|++++|
T Consensus       130 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  207 (359)
T 3ieg_A          130 AFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELS  207 (359)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            456799999999999998875 3478899999999999999999999999999775 34788999999999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHHH------------HHHHHHHhhCChhHHHHHHHHHHHCCCCCCh----hHHHHHHHHHHhc
Q 027412           82 TMMFSKMLEKGPKANVVTYS------------CLIDGYFKSQNMKSAFDVYEEMCENNISPNI----VSYSILIDGLCKR  145 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~  145 (223)
                      ...+++..+..+. +...+.            .+...+.+.|++++|...++++.+.. +.+.    ..+..+..++...
T Consensus       208 ~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~  285 (359)
T 3ieg_A          208 LSEVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHCFSKD  285 (359)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHHHc
Confidence            9999999988665 444443            23677899999999999999999864 3333    2355678899999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhh-HHHHhhh
Q 027412          146 GLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLL-LSTLADY  211 (223)
Q Consensus       146 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~-~~~l~~~  211 (223)
                      |++++|...+++..+..+ .+..++..+..++...|++++|...|+++.+  +.|+... ...+..+
T Consensus       286 ~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~~~~~l~~~  349 (359)
T 3ieg_A          286 EKPVEAIRICSEVLQMEP-DNVNALKDRAEAYLIEEMYDEAIQDYEAAQE--HNENDQQIREGLEKA  349 (359)
T ss_dssp             TCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCChHHHHHHHHH
Confidence            999999999999988754 4788999999999999999999999999998  4676443 4444443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.81  E-value=1.7e-17  Score=117.26  Aligned_cols=214  Identities=14%  Similarity=0.118  Sum_probs=174.9

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC--cHHHHHHHHHHHHhcCChh
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP--NSITFTILIDAFCKEGRMD   79 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~   79 (223)
                      +...|++++|+..|+++.+..+ .+...+..+..++...|++++|...+++..+....+  ....|..+..++...|+++
T Consensus        13 ~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~   91 (272)
T 3u4t_A           13 LFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDS   91 (272)
T ss_dssp             HHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHH
Confidence            4678999999999999988753 356688999999999999999999999998743222  2445889999999999999


Q ss_pred             HHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      +|...+++..+..+. +..++..+..++...|++++|...+++..+.. +.+...+..+...+...+++++|.+.++++.
T Consensus        92 ~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  169 (272)
T 3u4t_A           92 LAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFVKVL  169 (272)
T ss_dssp             HHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999998776 77899999999999999999999999998874 6677788888834455569999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCC---cchHHHHHHHHHHCC-CCCch------hhHHHHhhhHhhcCCCc
Q 027412          160 DNHLLPDVVTYAILIRGYCKAGR---PTEAMQLYDSMLRNG-IMPDG------LLLSTLADYNLQSSGSQ  219 (223)
Q Consensus       160 ~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~-~~p~~------~~~~~l~~~~~~~~~~~  219 (223)
                      +..+ .+...+..+..++...|+   +++|...++++.+.. -.|+.      ..+..+...+.+.|+.+
T Consensus       170 ~~~p-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  238 (272)
T 3u4t_A          170 ELKP-NIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKV  238 (272)
T ss_dssp             HHST-TCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HhCc-cchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHH
Confidence            8765 357888889999999998   889999999988752 12442      45666666676666544

>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=99.81  E-value=2.3e-17  Score=121.93  Aligned_cols=207  Identities=11%  Similarity=0.020  Sum_probs=178.5

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCc-hhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNR-LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      +.+.|++++|+..|+++++... -+..+|+.+..++...|+ +++|+..|+++.+..+. +..+|..+..++...|++++
T Consensus       107 ~~~~g~~~~Al~~~~~al~l~P-~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~~~~~g~~~e  184 (382)
T 2h6f_A          107 LQRDERSERAFKLTRDAIELNA-ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDPSQ  184 (382)
T ss_dssp             HHHTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTT
T ss_pred             HHHCCChHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHccCHHH
Confidence            3467899999999999998753 368899999999999997 99999999999988644 78899999999999999999


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh-cCCHHHH-----HHH
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK-RGLMEEA-----LYA  154 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a-----~~~  154 (223)
                      |+..|+++++.++. +...|..+..++...|++++|+..++++++.+ +.+...|+.+..++.. .|..++|     +..
T Consensus       185 Al~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~  262 (382)
T 2h6f_A          185 ELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREVQY  262 (382)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHHHHHHHHHH
Confidence            99999999999887 89999999999999999999999999999986 6778999999999999 6665777     588


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhhcC
Q 027412          155 FHCALDNHLLPDVVTYAILIRGYCKAG--RPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSS  216 (223)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~  216 (223)
                      +++.+...+ -+...|..+..++...|  ++++|.+.+.++ +  ..|+ ...+..+...+.+.+
T Consensus       263 ~~~Al~l~P-~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~--~~p~~~~al~~La~~~~~~~  323 (382)
T 2h6f_A          263 TLEMIKLVP-HNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q--PSHSSPYLIAFLVDIYEDML  323 (382)
T ss_dssp             HHHHHHHST-TCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T--TTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCC-CCHHHHHHHHHHHHccCccchHHHHHHHHHh-c--cCCCCHHHHHHHHHHHHHHh
Confidence            998888766 37789999999999988  689999999888 3  3454 456667777777654

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.80  E-value=2.9e-17  Score=120.89  Aligned_cols=213  Identities=16%  Similarity=0.059  Sum_probs=161.4

Q ss_pred             ccccCHHHHHH-HHHHHhhCCCC-c--CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCh
Q 027412            3 IKECHLDAALK-LFGQLTDRGLE-P--DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (223)
Q Consensus         3 ~~~g~~~~A~~-~~~~~~~~~~~-~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   78 (223)
                      .-.|++++|++ .|++....... |  +...+..+...+...|++++|...|+++.+..+ .+..++..+..++...|++
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCcCH
Confidence            34577888888 88766544221 1  345688899999999999999999999998763 3788899999999999999


Q ss_pred             hHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC------------------------------
Q 027412           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI------------------------------  128 (223)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------------------------------  128 (223)
                      ++|...++++.+.++. +..++..+..++...|++++|...++++.....                              
T Consensus       115 ~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (368)
T 1fch_A          115 LLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLS  193 (368)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHH
T ss_pred             HHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhh
Confidence            9999999999998776 788999999999999999999999988776421                              


Q ss_pred             -----------------CC---ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHH
Q 027412          129 -----------------SP---NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQ  188 (223)
Q Consensus       129 -----------------~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  188 (223)
                                       .|   +..++..++..+...|++++|...++++.+..+ .+..++..+..++...|++++|..
T Consensus       194 ~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~  272 (368)
T 1fch_A          194 DSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVA  272 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHcCCHHHHHH
Confidence                             11   456777788888888888888888888877654 467788888888888888888888


Q ss_pred             HHHHHHHCCCCCc-hhhHHHHhhhHhhcCCCcc
Q 027412          189 LYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       189 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~  220 (223)
                      .++++.+.  .|+ ...+..+...+.+.|+.++
T Consensus       273 ~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~  303 (368)
T 1fch_A          273 AYRRALEL--QPGYIRSRYNLGISCINLGAHRE  303 (368)
T ss_dssp             HHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHH
Confidence            88888874  343 5566677777777665443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.79  E-value=3.4e-17  Score=125.50  Aligned_cols=213  Identities=13%  Similarity=0.053  Sum_probs=162.5

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|+..|+++.+..  |+...+..+..++...|++++|...++++.+.++ .+..++..++.++...|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A   92 (514)
T 2gw1_A           16 FFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP-DYSKVLLRRASANEGLGKFADA   92 (514)
T ss_dssp             HHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh-HHHHHHHHHHHHHHHHhhHHHH
Confidence            467899999999999999874  6889999999999999999999999999988763 3678899999999999999999


Q ss_pred             HHHHHHHHhcCCCc------------------------------------------------------------------
Q 027412           82 TMMFSKMLEKGPKA------------------------------------------------------------------   95 (223)
Q Consensus        82 ~~~~~~~~~~~~~~------------------------------------------------------------------   95 (223)
                      ...|+++...++..                                                                  
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  172 (514)
T 2gw1_A           93 MFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFK  172 (514)
T ss_dssp             HHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSC
T ss_pred             HHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcC
Confidence            99999887765421                                                                  


Q ss_pred             ------------cHHHHHHHHHHHHh---hCChhHHHHHHHHHHH-----CCC--------CCChhHHHHHHHHHHhcCC
Q 027412           96 ------------NVVTYSCLIDGYFK---SQNMKSAFDVYEEMCE-----NNI--------SPNIVSYSILIDGLCKRGL  147 (223)
Q Consensus        96 ------------~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~l~~~~~~~~~  147 (223)
                                  +...+......+..   .|++++|...++++.+     ..-        +.+..++..++..+...|+
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  252 (514)
T 2gw1_A          173 PELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKND  252 (514)
T ss_dssp             CCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCC
Confidence                        12333334444443   7888888888888877     311        2235577788888888888


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCcc
Q 027412          148 MEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       148 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  220 (223)
                      +++|...++++.+..+.  ...+..+..++...|++++|...++++.+.. +.+...+..+...+...|..++
T Consensus       253 ~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  322 (514)
T 2gw1_A          253 PLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQ  322 (514)
T ss_dssp             HHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTH
T ss_pred             HHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHH
Confidence            88888888888876643  7778888888888888888888888887742 2244566666666666665543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.79  E-value=6.3e-17  Score=110.96  Aligned_cols=190  Identities=10%  Similarity=-0.041  Sum_probs=158.5

Q ss_pred             cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHH
Q 027412           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (223)
Q Consensus        25 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (223)
                      .+...+..+...+...|++++|...++++.+... .+...+..+..++...|++++|...+++.....+. +..++..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~   83 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSDP-KNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPD-SAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-ChHHHHHHH
Confidence            3567889999999999999999999999987653 36788999999999999999999999999998765 788899999


Q ss_pred             HHHHhh-CChhHHHHHHHHHHHCCC-CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 027412          105 DGYFKS-QNMKSAFDVYEEMCENNI-SPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR  182 (223)
Q Consensus       105 ~~~~~~-~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  182 (223)
                      ..+... |++++|...++++.+.+. +.+...+..+..++...|++++|...++++.+..+ .+...+..+..++...|+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQP-QFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCchHHHHHHHHHHHcCC
Confidence            999999 999999999999988322 33467889999999999999999999999988665 468889999999999999


Q ss_pred             cchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCC
Q 027412          183 PTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSG  217 (223)
Q Consensus       183 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  217 (223)
                      +++|...++++.+.....+...+..+...+...|.
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  197 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGN  197 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCc
Confidence            99999999999885211344455444444444443

>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=99.79  E-value=9.1e-17  Score=112.28  Aligned_cols=189  Identities=13%  Similarity=0.028  Sum_probs=160.9

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (223)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+..++...|++++|.+.++++.+..+. +...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSR-NARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHH
Confidence            5678899999999999999999999998765 336788999999999999999999999999998765 78889999999


Q ss_pred             HHhhCChhHHHHHHHHHHHCCC-CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcch
Q 027412          107 YFKSQNMKSAFDVYEEMCENNI-SPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTE  185 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  185 (223)
                      +...|++++|...++++...+. +.+...+..++..+...|++++|.+.++++.+..+ .+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR-NQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999987322 34567889999999999999999999999988765 468889999999999999999


Q ss_pred             HHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCc
Q 027412          186 AMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQ  219 (223)
Q Consensus       186 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  219 (223)
                      |...++++.+.. ..+...+..+...+...|+.+
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~  226 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRD  226 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHH
Confidence            999999998742 234555666666666666543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.79  E-value=1.3e-17  Score=127.80  Aligned_cols=211  Identities=14%  Similarity=0.058  Sum_probs=159.1

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +...|++++|+..|+++.+....  ...+..+..++...|++++|...++++.+... .+..++..+..++...|++++|
T Consensus       247 ~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A  323 (514)
T 2gw1_A          247 KFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDS-NNSSVYYHRGQMNFILQNYDQA  323 (514)
T ss_dssp             HHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCT-TCTHHHHHHHHHHHHTTCTTHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCc-CCHHHHHHHHHHHHHhCCHHHH
Confidence            45678888888888888776433  77788888888888888888888888876653 3566778888888888888888


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      ...+++..+..+. +...+..+..++...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.
T Consensus       324 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  401 (514)
T 2gw1_A          324 GKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIEL  401 (514)
T ss_dssp             HHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            8888888877665 66778888888888888888888888887763 556677888888888888888888888877654


Q ss_pred             CCC-CC----HHHHHHHHHHHHh---cCCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhhcCCCc
Q 027412          162 HLL-PD----VVTYAILIRGYCK---AGRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQ  219 (223)
Q Consensus       162 ~~~-~~----~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~  219 (223)
                      .+. ++    ...+..+..++..   .|++++|...++++.+.  .|+ ...+..+...+.+.|+.+
T Consensus       402 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~  466 (514)
T 2gw1_A          402 ENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKL--DPRSEQAKIGLAQMKLQQEDID  466 (514)
T ss_dssp             HHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             hhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhcCHH
Confidence            321 11    3377778888888   88888888888888774  343 455666666666666544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.79  E-value=3.4e-17  Score=113.70  Aligned_cols=192  Identities=14%  Similarity=0.083  Sum_probs=149.1

Q ss_pred             cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHH
Q 027412           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (223)
Q Consensus        25 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (223)
                      .....+..+...+...|++++|...|+++.+... .+...+..+..++...|++++|...+++..+..+. +...+..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENK-EDAIPYINFANLLSSVNELERALAFYDKALELDSS-AATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc-chHHHHHHH
Confidence            3456788888999999999999999999987653 37888999999999999999999999999998765 788999999


Q ss_pred             HHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcc
Q 027412          105 DGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPT  184 (223)
Q Consensus       105 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  184 (223)
                      ..+...|++++|...++++.+.. +.+...+..++..+...|++++|...++++.+..+ .+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE-NDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999999875 66788999999999999999999999999987655 47888999999999999999


Q ss_pred             hHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCccc
Q 027412          185 EAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  221 (223)
Q Consensus       185 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~~  221 (223)
                      +|...++++.+.. ..+...+..+...+.+.|+.+++
T Consensus       177 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  212 (243)
T 2q7f_A          177 EALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKA  212 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHH
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHH
Confidence            9999999998852 23466777788888887766543

>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=99.78  E-value=1.8e-15  Score=107.12  Aligned_cols=195  Identities=17%  Similarity=0.125  Sum_probs=160.6

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh---
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK---   74 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---   74 (223)
                      +...|++++|+..|++..+.   .+..++..+..++..    .+++++|...|++..+.+   +...+..+...|..   
T Consensus        16 ~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~   89 (273)
T 1ouv_A           16 SYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQG   89 (273)
T ss_dssp             HHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSS
T ss_pred             HHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCC
Confidence            34678999999999998874   256778888888988    999999999999998775   67788889999988   


Q ss_pred             -cCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh----hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh----c
Q 027412           75 -EGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK----R  145 (223)
Q Consensus        75 -~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  145 (223)
                       .+++++|+..|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+...|..    .
T Consensus        90 ~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~  163 (273)
T 1ouv_A           90 VSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTP  163 (273)
T ss_dssp             SCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSC
T ss_pred             cccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCC
Confidence             999999999999988864   66788888888988    899999999999998865   56778888888888    8


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhh
Q 027412          146 GLMEEALYAFHCALDNHLLPDVVTYAILIRGYCK----AGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQ  214 (223)
Q Consensus       146 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  214 (223)
                      +++++|...+++..+.+   +...+..+...+..    .+++++|...+++..+.+  | ...+..+-..+..
T Consensus       164 ~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~-~~a~~~l~~~~~~  230 (273)
T 1ouv_A          164 KDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--N-GGGCFNLGAMQYN  230 (273)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--C-HHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC--C-HHHHHHHHHHHHc
Confidence            99999999999988764   46778888888888    899999999999988853  2 4555566666655

>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=99.77  E-value=1.3e-16  Score=126.48  Aligned_cols=166  Identities=17%  Similarity=0.149  Sum_probs=152.9

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (223)
                      +..+++.|..++.+.|++++|+..|++..+..+. +..++..+..+|.+.|++++|+..|++.++.++. +..+|..+..
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 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            4778999999999999999999999999987643 6889999999999999999999999999998877 7899999999


Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcch
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTE  185 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  185 (223)
                      ++...|++++|++.|++..+.+ +.+..+++.+..+|...|++++|++.|++.++..+ -+...+..+..++...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P-~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKP-DFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHhhhhhHHHhcccHHH
Confidence            9999999999999999999875 66788999999999999999999999999998776 378899999999999999999


Q ss_pred             HHHHHHHHHH
Q 027412          186 AMQLYDSMLR  195 (223)
Q Consensus       186 a~~~~~~~~~  195 (223)
                      |.+.++++.+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988875

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.77  E-value=2.1e-16  Score=105.39  Aligned_cols=157  Identities=16%  Similarity=0.160  Sum_probs=141.8

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      |.+.|++++|++.|++..+..+ -+..++..+..++.+.|++++|...+......... +...+..+...+...++++.+
T Consensus        15 ~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a   92 (184)
T 3vtx_A           15 KRTKGDFDGAIRAYKKVLKADP-NNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGSANFMIDEKQAA   92 (184)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHHHHHHcCCHHHH
Confidence            4678999999999999998753 37889999999999999999999999999877543 677888889999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      ...+.+.....+. +...+..+..++...|++++|+..|++..+.+ |.+..++..+..+|.+.|++++|.+.|++.++.
T Consensus        93 ~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  170 (184)
T 3vtx_A           93 IDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHHHHHHHHHhC
Confidence            9999999998776 78899999999999999999999999999875 677889999999999999999999999999886


Q ss_pred             C
Q 027412          162 H  162 (223)
Q Consensus       162 ~  162 (223)
                      .
T Consensus       171 ~  171 (184)
T 3vtx_A          171 E  171 (184)
T ss_dssp             T
T ss_pred             C
Confidence            4

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.77  E-value=1.3e-16  Score=111.69  Aligned_cols=190  Identities=12%  Similarity=0.103  Sum_probs=161.8

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCc--c----HHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKA--N----VVT   99 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~----~~~   99 (223)
                      ....+..+...+...|++++|...|+++.+..  .+..++..+..++...|++++|...+++..+..+..  +    ..+
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            35678899999999999999999999998877  678899999999999999999999999998864431  1    578


Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHHHCC-------------------------CCCChhHHHHHHHHHHhcCCHHHHHHH
Q 027412          100 YSCLIDGYFKSQNMKSAFDVYEEMCENN-------------------------ISPNIVSYSILIDGLCKRGLMEEALYA  154 (223)
Q Consensus       100 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~  154 (223)
                      +..+..++...|++++|...++++....                         .+.+...+..+...+...|++++|...
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  161 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKA  161 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHH
Confidence            9999999999999999999999998731                         134566788899999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhhcCCCcc
Q 027412          155 FHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~  220 (223)
                      ++++.+..+ .+...+..+..++...|++++|...++++.+.  .|+ ...+..+...+.+.|+.++
T Consensus       162 ~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~  225 (258)
T 3uq3_A          162 YTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEK--DPNFVRAYIRKATAQIAVKEYAS  225 (258)
T ss_dssp             HHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHhcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CHHHHHHHHHHHHHHHHHhhHHH
Confidence            999998765 47889999999999999999999999999985  444 5667777777777776543

>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=99.77  E-value=3.5e-16  Score=107.85  Aligned_cols=181  Identities=13%  Similarity=0.047  Sum_probs=112.6

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (223)
                      ++..+......+...|++++|...|++..+....++...+..+..++...|++++|+..+++..+.++. +...|..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHHH
Confidence            445566666666666666666666666665543345555555666666666666666666666665554 5556666666


Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCCCh-------hHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHH
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISPNI-------VSYSILIDGLCKRGLMEEALYAFHCALDNHLLP--DVVTYAILIRG  176 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~  176 (223)
                      ++...|++++|...+++..+.. +.+.       ..|..+...+...|++++|.+.|++..+..+ .  +...+..+..+
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~l~~~  162 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTS-KKWKTDALYSLGVL  162 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSC-HHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCC-CcccHHHHHHHHHH
Confidence            6666666666666666666543 3333       3455566666666666666666666665432 2  24555556666


Q ss_pred             HHhcCCc---------------------------chHHHHHHHHHHCCCCCchhhHHHHhhh
Q 027412          177 YCKAGRP---------------------------TEAMQLYDSMLRNGIMPDGLLLSTLADY  211 (223)
Q Consensus       177 ~~~~g~~---------------------------~~a~~~~~~~~~~~~~p~~~~~~~l~~~  211 (223)
                      +...|+.                           ++|...+++..+  +.|+......++..
T Consensus       163 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~--l~p~~~~~~~~l~~  222 (228)
T 4i17_A          163 FYNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVT--LSPNRTEIKQMQDQ  222 (228)
T ss_dssp             HHHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhh--cCCCCHHHHHHHHH
Confidence            6655555                           899999999998  46776655555443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.77  E-value=7e-17  Score=114.14  Aligned_cols=193  Identities=16%  Similarity=0.024  Sum_probs=150.7

Q ss_pred             ccccCHHHHHHHHHHHhhCCC---CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChh
Q 027412            3 IKECHLDAALKLFGQLTDRGL---EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD   79 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   79 (223)
                      ...|++++|+..|+++.+...   +.+..++..+..++...|++++|...|+++.+..+ .+..++..+..++...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCHH
Confidence            456889999999999987632   12466788899999999999999999999987753 36788999999999999999


Q ss_pred             HHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      +|...+++..+..+. +..++..+..++...|++++|...++++.+..  |+.......+..+...|++++|...+++..
T Consensus        95 ~A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           95 AAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            999999999988765 67888999999999999999999999998753  443344444445566677777777776554


Q ss_pred             hCCCC-------------------------------C-----CHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc
Q 027412          160 DNHLL-------------------------------P-----DVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD  201 (223)
Q Consensus       160 ~~~~~-------------------------------~-----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  201 (223)
                      ...+.                               |     +...+..+..++...|++++|...|+++.+.  .|+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~  247 (275)
T 1xnf_A          172 EKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVH  247 (275)
T ss_dssp             HHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCT
T ss_pred             hcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cch
Confidence            32211                               1     1467788888899999999999999998874  564

>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=99.77  E-value=1.6e-16  Score=105.61  Aligned_cols=166  Identities=22%  Similarity=0.185  Sum_probs=148.4

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (223)
                      ...+..+...+...|++++|...++++.+... .+..++..+...+...|++++|...++++.+..+. +...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADAPD-NVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHH
Confidence            45678888999999999999999999986643 37788999999999999999999999999988665 78889999999


Q ss_pred             HHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchH
Q 027412          107 YFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEA  186 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  186 (223)
                      +...|++++|...++++.... +.+...+..++..+...|++++|...++++.+..+ .+...+..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP-NEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999998874 66788999999999999999999999999988764 4688999999999999999999


Q ss_pred             HHHHHHHHHC
Q 027412          187 MQLYDSMLRN  196 (223)
Q Consensus       187 ~~~~~~~~~~  196 (223)
                      ...++++.+.
T Consensus       164 ~~~~~~~~~~  173 (186)
T 3as5_A          164 LPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            9999999874

>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=99.76  E-value=1.4e-16  Score=122.81  Aligned_cols=209  Identities=15%  Similarity=0.075  Sum_probs=133.5

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      ...|++++|+..|+++.+.  .|+...+..+..++...|++++|...++++.+..+ .+..++..+...+...|++++|.
T Consensus       254 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~  330 (537)
T 3fp2_A          254 FLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNP-EYPPTYYHRGQMYFILQDYKNAK  330 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCC-CCHHHHHHHHHHHHhcCCHHHHH
Confidence            3456777777777777765  34466677777777777777777777777766542 25666777777777777777777


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ..+++..+..+. +...+..+..++...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+..
T Consensus       331 ~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          331 EDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             HHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence            777777776554 55667777777777777777777777777653 4556677777777777777777777777665432


Q ss_pred             C-----CCCHHHHHHHHHHHHhc----------CCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhhcCCC
Q 027412          163 L-----LPDVVTYAILIRGYCKA----------GRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGS  218 (223)
Q Consensus       163 ~-----~~~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~  218 (223)
                      +     ......+.....++...          |++++|...++++.+.  .|+ ...+..+...+.+.|+.
T Consensus       409 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~g~~  478 (537)
T 3fp2_A          409 EVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL--DPRSEQAKIGLAQLKLQMEKI  478 (537)
T ss_dssp             HHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             CcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccH
Confidence            1     11122233444555555          6666666666666653  232 34455555555555543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.76  E-value=1.1e-16  Score=113.06  Aligned_cols=206  Identities=9%  Similarity=0.003  Sum_probs=166.0

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCc--CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChh
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEP--DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD   79 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   79 (223)
                      +.+.|++++|++.|+++.+....+  ....|..+..++...|++++|...+++..+..+. +..++..+..+|...|+++
T Consensus        47 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~  125 (272)
T 3u4t_A           47 YYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFP  125 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHH
Confidence            567899999999999998843222  2445899999999999999999999999887533 6678999999999999999


Q ss_pred             HHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC---HHHHHHHHH
Q 027412           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL---MEEALYAFH  156 (223)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~  156 (223)
                      +|...+++..+..+. +...|..+...+...+++++|...++++.+.. +.+...+..+..++...|+   +++|...++
T Consensus       126 ~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  203 (272)
T 3u4t_A          126 LAIQYMEKQIRPTTT-DPKVFYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYE  203 (272)
T ss_dssp             HHHHHHGGGCCSSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHH
T ss_pred             HHHHHHHHHhhcCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHH
Confidence            999999999988665 77788888834445569999999999999874 5567888889999999888   888998888


Q ss_pred             HHHhCC-CCCC------HHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhH
Q 027412          157 CALDNH-LLPD------VVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN  212 (223)
Q Consensus       157 ~~~~~~-~~~~------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  212 (223)
                      ++.+.. ..|+      ..+|..+...|...|++++|...++++.+  +.|+.......+...
T Consensus       204 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~a~~~l~~~  264 (272)
T 3u4t_A          204 KLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILA--LDPTNKKAIDGLKMK  264 (272)
T ss_dssp             HHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHC--
T ss_pred             HHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCccHHHHHHHhhhh
Confidence            877542 1122      25788899999999999999999999998  467766555544443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.76  E-value=5e-17  Score=123.82  Aligned_cols=200  Identities=13%  Similarity=-0.002  Sum_probs=139.6

Q ss_pred             cCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCch-hHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRL-DEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         6 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      +.+++++..++...... +.+...+..+..++...|++ ++|+..|++..+..+. +..+|..+..+|...|++++|...
T Consensus        82 ~~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           82 EEMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHH
Confidence            34666777777665543 23567777777777778887 8888888777766432 567777777788888888888888


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhh---------CChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc--------CC
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKS---------QNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR--------GL  147 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~  147 (223)
                      |++..+..+  +...+..+..++...         |++++|...++++.+.. +.+...+..+..+|...        |+
T Consensus       160 ~~~al~~~p--~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          160 FSGALTHCK--NKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHHHTTCC--CHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHhhCC--CHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccch
Confidence            877777654  357777777777777         77888888888777764 55677777777777777        77


Q ss_pred             HHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh-hHHHHhhhH
Q 027412          148 MEEALYAFHCALDNHLL--PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL-LLSTLADYN  212 (223)
Q Consensus       148 ~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~  212 (223)
                      +++|...|++..+..+.  .+...|..+..++...|++++|...|++..+.  .|+.. .+..+...+
T Consensus       237 ~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~a~~~l~~~~  302 (474)
T 4abn_A          237 SQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAAL--DPAWPEPQQREQQLL  302 (474)
T ss_dssp             HHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            88888888777765431  26677777777788888888888888777763  44433 333333333

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.75  E-value=1.7e-16  Score=120.92  Aligned_cols=186  Identities=12%  Similarity=-0.046  Sum_probs=166.1

Q ss_pred             cccccCH-HHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhc-----
Q 027412            2 LIKECHL-DAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE-----   75 (223)
Q Consensus         2 ~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----   75 (223)
                      +...|++ ++|++.|++..+... .+...|..+..+|...|++++|...|++..+..  |+...+..+..++...     
T Consensus       112 ~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg~~~~~~~~~~~  188 (474)
T 4abn_A          112 LNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLSMVLRQLQTDSG  188 (474)
T ss_dssp             HTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHHHHHTTCCCSCH
T ss_pred             HHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHHHHHHHhccCCh
Confidence            4567999 999999999988753 368899999999999999999999999999874  5678899999999999     


Q ss_pred             ----CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhh--------CChhHHHHHHHHHHHCCCC---CChhHHHHHHH
Q 027412           76 ----GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS--------QNMKSAFDVYEEMCENNIS---PNIVSYSILID  140 (223)
Q Consensus        76 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~  140 (223)
                          |++++|+..+++..+..+. +...|..+..+|...        |++++|...|+++.+.. +   .+...+..+..
T Consensus       189 ~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~lg~  266 (474)
T 4abn_A          189 DEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVD-RKASSNPDLHLNRAT  266 (474)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHC-GGGGGCHHHHHHHHH
T ss_pred             hhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhC-CCcccCHHHHHHHHH
Confidence                9999999999999998876 788999999999999        99999999999999864 4   58889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          141 GLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       141 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                      +|...|++++|.+.|++..+..+ .+...+..+..++...|++++|...+.++
T Consensus       267 ~~~~~g~~~~A~~~~~~al~l~p-~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          267 LHKYEESYGEALEGFSQAAALDP-AWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            99999999999999999998765 46788999999999999999998766443

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.75  E-value=7.4e-16  Score=113.87  Aligned_cols=203  Identities=11%  Similarity=-0.002  Sum_probs=170.3

Q ss_pred             cccccC-HHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH
Q 027412            2 LIKECH-LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         2 ~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      |.+.|+ +++|+..|+++.+.... +..+|..+..++...|++++|+..|+++.+..+. +..+|..+..++...|++++
T Consensus       141 l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~e  218 (382)
T 2h6f_A          141 LKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDN  218 (382)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTT
T ss_pred             HHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHH
Confidence            446686 99999999999988643 7889999999999999999999999999988644 88899999999999999999


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHh-hCChhHH-----HHHHHHHHHCCCCCChhHHHHHHHHHHhcC--CHHHHH
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFK-SQNMKSA-----FDVYEEMCENNISPNIVSYSILIDGLCKRG--LMEEAL  152 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~  152 (223)
                      |+..++++++.++. +...|+.+..++.. .|..++|     +..+++++... +-+...|+.+..++...|  ++++|+
T Consensus       219 Al~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~  296 (382)
T 2h6f_A          219 ELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLL  296 (382)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHH
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHH
Confidence            99999999999887 88999999999999 6665887     58899998875 667889999999999988  689999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcC---------CcchHHHHHHHH-HHCCCCCchhh-HHHHhhhH
Q 027412          153 YAFHCALDNHLLPDVVTYAILIRGYCKAG---------RPTEAMQLYDSM-LRNGIMPDGLL-LSTLADYN  212 (223)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---------~~~~a~~~~~~~-~~~~~~p~~~~-~~~l~~~~  212 (223)
                      +.+.++ +..+ .+...+..++.+|.+.|         ..++|.++++++ .+  +.|...- |..+...+
T Consensus       297 ~~~~~~-~~~p-~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~--~DP~r~~~w~~~~~~l  363 (382)
T 2h6f_A          297 NQLLDL-QPSH-SSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKE--KDTIRKEYWRYIGRSL  363 (382)
T ss_dssp             HHHHHH-TTTC-CCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHT--TCGGGHHHHHHHHHHH
T ss_pred             HHHHHh-ccCC-CCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHH--hCchhHHHHHHHHHHH
Confidence            999988 5444 57788899999998874         258999999998 66  5676554 33444433

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.74  E-value=2.8e-15  Score=108.03  Aligned_cols=203  Identities=11%  Similarity=0.083  Sum_probs=107.3

Q ss_pred             HHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh-------cCch-------hHHHHHHHHHHh-CCCCCcHHHHHHHHHHHH
Q 027412            9 DAALKLFGQLTDRGLEPDIITYNTIICGYCS-------LNRL-------DEAVQLFEKLTC-VQLKPNSITFTILIDAFC   73 (223)
Q Consensus         9 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~   73 (223)
                      ++|+.+|++..... +.++..|..++..+..       .|++       ++|..+|++..+ .. +.+...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~-p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLL-KKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTT-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            45556666665542 2245555555555442       3553       566666666655 22 224455666666666


Q ss_pred             hcCChhHHHHHHHHHHhcCCCccHH-HHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHH-hcCCHHHH
Q 027412           74 KEGRMDDATMMFSKMLEKGPKANVV-TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLC-KRGLMEEA  151 (223)
Q Consensus        74 ~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a  151 (223)
                      +.|++++|..+|++..+..+. +.. .|..++..+.+.|++++|..+|+++.+.+ +.+...|...+.... ..|++++|
T Consensus       111 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             hcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHH
Confidence            666666666666666654332 232 56666666666666666666666666543 333334433332221 24666666


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCC-CCCc--hhhHHHHhhhHhhcC
Q 027412          152 LYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNG-IMPD--GLLLSTLADYNLQSS  216 (223)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~p~--~~~~~~l~~~~~~~~  216 (223)
                      .++|++..+..+ .+...|..++..+.+.|++++|..+|++.++.. +.|+  ...+..++....+.|
T Consensus       189 ~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g  255 (308)
T 2ond_A          189 FKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIG  255 (308)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcC
Confidence            666666655433 245556666666666666666666666666542 2332  234444444444433

>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=8.7e-16  Score=118.44  Aligned_cols=185  Identities=18%  Similarity=0.139  Sum_probs=162.2

Q ss_pred             cCHHHHHHHHHHHhhCCCCcC-------HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCh
Q 027412            6 CHLDAALKLFGQLTDRGLEPD-------IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (223)
Q Consensus         6 g~~~~A~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   78 (223)
                      |++++|+.+|+++.+..+. +       ..++..+...+...|++++|...++++.+..  |+..++..+...+...|++
T Consensus       216 ~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~  292 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENS  292 (537)
T ss_dssp             HHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCC
T ss_pred             HHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCH
Confidence            5899999999999887432 3       2357777788899999999999999998874  5578899999999999999


Q ss_pred             hHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      ++|...+++..+..+. +..++..+..++...|++++|...++++.+.. +.+..++..+...+...|++++|...++++
T Consensus       293 ~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~  370 (537)
T 3fp2_A          293 QEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNET  370 (537)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999999998776 78899999999999999999999999999875 566789999999999999999999999999


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          159 LDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       159 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      .+..+ .+...+..+...+...|++++|...++++.+.
T Consensus       371 ~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          371 KLKFP-TLPEVPTFFAEILTDRGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             HHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            88765 46778999999999999999999999998874

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.73  E-value=2.8e-15  Score=108.05  Aligned_cols=185  Identities=12%  Similarity=0.111  Sum_probs=155.3

Q ss_pred             HHHHHHHHHHHhh-CCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHH-HHHHHHHHHHhcCChhHHHHHH
Q 027412            8 LDAALKLFGQLTD-RGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDDATMMF   85 (223)
Q Consensus         8 ~~~A~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~   85 (223)
                      +++|+.+|++..+ .. +.+...|..++..+.+.|++++|..+|+++.+..+. +.. +|..++..+.+.|++++|..+|
T Consensus        80 ~~~A~~~~~rAl~~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~  157 (308)
T 2ond_A           80 SDEAANIYERAISTLL-KKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHTTTT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHH
Confidence            3999999999998 43 336778999999999999999999999999986432 343 8999999999999999999999


Q ss_pred             HHHHhcCCCccHHHHHHHHHHHH-hhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-C
Q 027412           86 SKMLEKGPKANVVTYSCLIDGYF-KSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH-L  163 (223)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~  163 (223)
                      ++..+..+. +...|...+.... ..|++++|..+|+++.+.. +.+...|..++..+.+.|++++|..+|++..... .
T Consensus       158 ~~a~~~~p~-~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l  235 (308)
T 2ond_A          158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhcCCC-CHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCC
Confidence            999987654 5566654444432 3699999999999998764 5678899999999999999999999999999863 3


Q ss_pred             CC--CHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          164 LP--DVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       164 ~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      .|  +...|..++......|+.++|..+++++.+.
T Consensus       236 ~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34  5678999999999999999999999999884

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.73  E-value=2.6e-16  Score=113.06  Aligned_cols=194  Identities=15%  Similarity=0.106  Sum_probs=155.7

Q ss_pred             cccccCHHHHHHHHHHHhhC-------CCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhC------C-CCCcHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDR-------GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV------Q-LKPNSITFTI   67 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~   67 (223)
                      +...|++++|+.+|+++.+.       ..+....++..+..++...|++++|...+++..+.      + .+....++..
T Consensus        37 ~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  116 (311)
T 3nf1_A           37 YASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNN  116 (311)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            45789999999999998773       22334677889999999999999999999998764      2 1234567889


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcC------C-CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC------C-CCCChh
Q 027412           68 LIDAFCKEGRMDDATMMFSKMLEKG------P-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN------N-ISPNIV  133 (223)
Q Consensus        68 l~~~~~~~~~~~~a~~~~~~~~~~~------~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~  133 (223)
                      +...+...|++++|...+++..+..      . ......+..+...+...|++++|..+++++...      + .+....
T Consensus       117 l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  196 (311)
T 3nf1_A          117 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAK  196 (311)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHH
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHH
Confidence            9999999999999999999887752      1 224567888999999999999999999998864      1 123355


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC------------------------------------------------CCCC
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALDN------------------------------------------------HLLP  165 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~------------------------------------------------~~~~  165 (223)
                      ++..+..++...|++++|.+.++++.+.                                                ....
T Consensus       197 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  276 (311)
T 3nf1_A          197 TKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPT  276 (311)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------CHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCch
Confidence            7888999999999999999999988752                                                1112


Q ss_pred             CHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          166 DVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       166 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      ...++..+..+|...|++++|...+++..+
T Consensus       277 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          277 VTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            456778888899999999999999988876

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.73  E-value=1e-15  Score=108.20  Aligned_cols=181  Identities=13%  Similarity=-0.029  Sum_probs=137.9

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +...|++++|+..|+++.+.. +.+..++..+..++...|++++|...++++.+..+. +..++..+..++...|++++|
T Consensus        53 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A  130 (275)
T 1xnf_A           53 YDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLA  130 (275)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHH
Confidence            457899999999999998875 336889999999999999999999999999887533 678889999999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC-------------------------------CC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI-------------------------------SP  130 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------------------------------~~  130 (223)
                      ...++++.+..+. +. .....+..+...|++++|...+++......                               .|
T Consensus       131 ~~~~~~a~~~~~~-~~-~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  208 (275)
T 1xnf_A          131 QDDLLAFYQDDPN-DP-FRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNT  208 (275)
T ss_dssp             HHHHHHHHHHCTT-CH-HHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHH
T ss_pred             HHHHHHHHHhCCC-Ch-HHHHHHHHHHHhcCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhcccc
Confidence            9999999987654 33 333344455666888888888865554310                               01


Q ss_pred             -----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHH
Q 027412          131 -----NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLY  190 (223)
Q Consensus       131 -----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  190 (223)
                           +..++..+...+...|++++|...|+++.+..+. +   +.....++...|++++|++.+
T Consensus       209 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~---~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          209 SLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVH-N---FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCT-T---CHHHHHHHHHHHHHHHC----
T ss_pred             cccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCch-h---HHHHHHHHHHHHHHHhhHHHH
Confidence                 1467788899999999999999999999987542 3   233355677788888887765

>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=99.73  E-value=1.3e-14  Score=102.60  Aligned_cols=178  Identities=15%  Similarity=0.090  Sum_probs=159.8

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----cC
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EG   76 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~   76 (223)
                      .+++++|+..|++..+.+   +...+..+..+|..    .+++++|...|++..+.+   +..++..+...|..    .+
T Consensus        55 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~  128 (273)
T 1ouv_A           55 EKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTR  128 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCC
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCccc
Confidence            789999999999999875   77889999999999    999999999999999874   77888999999999    99


Q ss_pred             ChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh----hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh----cCCH
Q 027412           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK----RGLM  148 (223)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~  148 (223)
                      ++++|+..|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++
T Consensus       129 ~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~  202 (273)
T 1ouv_A          129 DFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNF  202 (273)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCH
T ss_pred             CHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccH
Confidence            9999999999999875   46677888889988    899999999999999865   56788899999999    9999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCcchHHHHHHHHHHCC
Q 027412          149 EEALYAFHCALDNHLLPDVVTYAILIRGYCK----AGRPTEAMQLYDSMLRNG  197 (223)
Q Consensus       149 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  197 (223)
                      ++|...+++..+.+.   ...+..+...|..    .+++++|...|++..+.|
T Consensus       203 ~~A~~~~~~a~~~~~---~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          203 KEALARYSKACELEN---GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHHHHHTTC---HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCC---HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            999999999998753   6778888999998    999999999999999864

>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=99.72  E-value=4.6e-16  Score=110.15  Aligned_cols=192  Identities=17%  Similarity=0.084  Sum_probs=150.5

Q ss_pred             cccCHHHHHHHHHHHhh-------CCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhC------CC-CCcHHHHHHHH
Q 027412            4 KECHLDAALKLFGQLTD-------RGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV------QL-KPNSITFTILI   69 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~   69 (223)
                      ..|++++|+..|++..+       ...+....++..+..++...|++++|...++++.+.      +. +....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            45667777777776654       222334678899999999999999999999998754      21 22456889999


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcC-----C--CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC------C-CCCChhHH
Q 027412           70 DAFCKEGRMDDATMMFSKMLEKG-----P--KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN------N-ISPNIVSY  135 (223)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~-----~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~  135 (223)
                      .+|...|++++|...+++.....     .  +....++..+...+...|++++|...++++.+.      + .+....++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            99999999999999999887751     1  225678889999999999999999999998865      1 12345688


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC------------------------------------------------CCCCCH
Q 027412          136 SILIDGLCKRGLMEEALYAFHCALDN------------------------------------------------HLLPDV  167 (223)
Q Consensus       136 ~~l~~~~~~~~~~~~a~~~~~~~~~~------------------------------------------------~~~~~~  167 (223)
                      ..+..++...|++++|...++++.+.                                                ......
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  252 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVN  252 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHH
Confidence            89999999999999999999988753                                                111234


Q ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          168 VTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       168 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      .++..+..++...|++++|..++++..+
T Consensus       253 ~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          253 TTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5678888889999999999999988775

>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=99.71  E-value=6.1e-15  Score=101.62  Aligned_cols=168  Identities=11%  Similarity=0.045  Sum_probs=141.3

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|+..|++..+...+++...+..+..++...|++++|+..+++..+..+. +..++..+..++...|++++|
T Consensus        17 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A   95 (228)
T 4i17_A           17 ALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKSAAYRDMKNNQEY   95 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHcccHHHH
Confidence            4578999999999999998765467788888999999999999999999999987643 778899999999999999999


Q ss_pred             HHHHHHHHhcCCCccH-------HHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCC--ChhHHHHHHHHHHhcCCH----
Q 027412           82 TMMFSKMLEKGPKANV-------VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP--NIVSYSILIDGLCKRGLM----  148 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~----  148 (223)
                      +..+++..+..+. +.       ..|..+...+...|++++|...|+++.+.+ +.  +...+..+..+|...|+.    
T Consensus        96 ~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~~~~~~~~~~~  173 (228)
T 4i17_A           96 IATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT-SKKWKTDALYSLGVLFYNNGADVLRK  173 (228)
T ss_dssp             HHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS-CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC-CCcccHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999998765 55       568888999999999999999999999864 44  467888899999888887    


Q ss_pred             -----------------------HHHHHHHHHHHhCCCCCCHHHHHHH
Q 027412          149 -----------------------EEALYAFHCALDNHLLPDVVTYAIL  173 (223)
Q Consensus       149 -----------------------~~a~~~~~~~~~~~~~~~~~~~~~l  173 (223)
                                             ++|...+++..+..+ .+..+...+
T Consensus       174 a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l~p-~~~~~~~~l  220 (228)
T 4i17_A          174 ATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTLSP-NRTEIKQMQ  220 (228)
T ss_dssp             HGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             HHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC-CCHHHHHHH
Confidence                                   888888888887654 244444433

>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=99.70  E-value=4.5e-15  Score=98.51  Aligned_cols=157  Identities=18%  Similarity=0.096  Sum_probs=139.3

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +...|++++|+..|+++.+.. +.+...+..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|
T Consensus        18 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A   95 (186)
T 3as5_A           18 HAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYDLA   95 (186)
T ss_dssp             HHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHH
Confidence            456799999999999988764 3468889999999999999999999999998765 33778889999999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      ...++++.+..+. +...+..+..++...|++++|...++++.+.. +.+..++..++..+...|++++|...++++.+.
T Consensus        96 ~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A           96 VPLLIKVAEANPI-NFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCcH-hHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            9999999988765 78889999999999999999999999999875 667889999999999999999999999988764


Q ss_pred             C
Q 027412          162 H  162 (223)
Q Consensus       162 ~  162 (223)
                      .
T Consensus       174 ~  174 (186)
T 3as5_A          174 D  174 (186)
T ss_dssp             H
T ss_pred             C
Confidence            3

>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=99.69  E-value=2.9e-15  Score=118.83  Aligned_cols=155  Identities=10%  Similarity=0.040  Sum_probs=141.1

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      |.+.|++++|++.|++..+... -+..++..+..+|.+.|++++|+..|++..+.... +..+|..+..++.+.|++++|
T Consensus        19 ~~~~G~~~eAi~~~~kAl~l~P-~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~~l~~~g~~~~A   96 (723)
T 4gyw_A           19 KREQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGNTLKEMQDVQGA   96 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHH
Confidence            5678999999999999998753 36889999999999999999999999999987643 688999999999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      ++.|++..+.++. +..+|+.+..++...|++++|+..|+++.+.. +.+...+..++.++...|++++|.+.++++.+
T Consensus        97 ~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A           97 LQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHHHHHHHHHHH
Confidence            9999999998877 88999999999999999999999999999875 66788999999999999999999999988764

>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=99.68  E-value=8.8e-18  Score=123.98  Aligned_cols=137  Identities=15%  Similarity=0.121  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHH
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (223)
                      ..|..++..+...|++++|+.+++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..++..|
T Consensus        62 ~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~  132 (449)
T 1b89_A           62 SSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRC  132 (449)
T ss_dssp             -------------------------------------------------CHHHHTTTTT-------CC------------
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHH
Confidence            34444444444444444444444333322  2233444444444444444444444442       13444555555555


Q ss_pred             HhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHH
Q 027412          108 FKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAM  187 (223)
Q Consensus       108 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  187 (223)
                      ...|.+++|..+|..+         ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|+..|+++.|.
T Consensus       133 ~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~  197 (449)
T 1b89_A          133 YDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQ  197 (449)
T ss_dssp             ----CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHH
Confidence            5555555555555543         24555555555555555555555554      14555555555666666555554


Q ss_pred             H
Q 027412          188 Q  188 (223)
Q Consensus       188 ~  188 (223)
                      .
T Consensus       198 ~  198 (449)
T 1b89_A          198 M  198 (449)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.67  E-value=6.1e-17  Score=119.56  Aligned_cols=180  Identities=11%  Similarity=0.094  Sum_probs=44.3

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      +.|++++|.+.++++.      ++.+|..++.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+.
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            3456666666666662      2236667777777777777777666542      355566666666666777777777


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      +++..++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..++..|...|.+++|...|..+     
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            55555442  2245566666777777777766666653       255556777777777777777777777644     


Q ss_pred             CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCCc
Q 027412          164 LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQ  219 (223)
Q Consensus       164 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  219 (223)
                          ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|...|...
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~  194 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFR  194 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHH
Confidence                24666677777777777777776666      25566666666666665443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.66  E-value=2.9e-14  Score=96.91  Aligned_cols=174  Identities=14%  Similarity=0.093  Sum_probs=120.5

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHH----------------HHHHHHhcCChhHHHHHHHHHHhcC
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI----------------LIDAFCKEGRMDDATMMFSKMLEKG   92 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~   92 (223)
                      .+......+...|++++|+..|++..+..+. +...+..                +..++.+.|++++|+..|++..+.+
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   84 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA   84 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            3444455566777777777777777655321 3445555                8888888888888988888888887


Q ss_pred             CCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCCHHHH
Q 027412           93 PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL--MEEALYAFHCALDNHLLPDVVTY  170 (223)
Q Consensus        93 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~  170 (223)
                      |. +...+..+..++...|++++|...|+++.+.+ |.+..++..+..+|...|+  .+.+...+.....  +.|....+
T Consensus        85 p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~  160 (208)
T 3urz_A           85 PN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYAR  160 (208)
T ss_dssp             TT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHH
T ss_pred             CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHH
Confidence            76 77888888888888889999998888888865 6667788888888766554  3445555554432  22333344


Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHh
Q 027412          171 AILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLA  209 (223)
Q Consensus       171 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  209 (223)
                      .....++...|++++|...|++.++  +.|+......+.
T Consensus       161 ~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l~  197 (208)
T 3urz_A          161 YRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTLD  197 (208)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHHHH
Confidence            5556667778888889988888887  577765554443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.64  E-value=7.4e-15  Score=105.41  Aligned_cols=170  Identities=22%  Similarity=0.174  Sum_probs=140.3

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhC-------CCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc------C
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCV-------QLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK------G   92 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~   92 (223)
                      ...++..+...+...|++++|..+++++.+.       .......++..+...+...|++++|...+++....      +
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            4677899999999999999999999998763       22335677889999999999999999999988765      2


Q ss_pred             -CCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC------CC-CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC---
Q 027412           93 -PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN------NI-SPNIVSYSILIDGLCKRGLMEEALYAFHCALDN---  161 (223)
Q Consensus        93 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  161 (223)
                       ......++..+...+...|++++|...++++.+.      +. +....++..+...+...|++++|.+.++++.+.   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence             2234678888999999999999999999998864      11 234567888999999999999999999998764   


Q ss_pred             ---CCCC-CHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          162 ---HLLP-DVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       162 ---~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                         +..| ...++..+..++...|++++|...++++.+
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               1122 345788899999999999999999999886

>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=99.64  E-value=1.2e-14  Score=115.24  Aligned_cols=173  Identities=12%  Similarity=-0.047  Sum_probs=148.9

Q ss_pred             cccCHHHHHHHHHHHh--------hCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhc
Q 027412            4 KECHLDAALKLFGQLT--------DRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE   75 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   75 (223)
                      ..|++++|++.+++..        +.. +.+...+..+..++...|++++|...|+++.+.+.. +...|..+..++...
T Consensus       403 ~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          403 VLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHH
T ss_pred             cccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHHc
Confidence            5689999999999998        443 336778999999999999999999999999887533 788899999999999


Q ss_pred             CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHH
Q 027412           76 GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAF  155 (223)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  155 (223)
                      |++++|+..|++..+.++. +...|..+..++.+.|++++ ...|+++.+.+ +.+...+..+..++.+.|++++|.+.|
T Consensus       481 g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999998877 78899999999999999999 99999999875 667889999999999999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 027412          156 HCALDNHLLPDVVTYAILIRGYCKAGR  182 (223)
Q Consensus       156 ~~~~~~~~~~~~~~~~~l~~~~~~~g~  182 (223)
                      +++.+.++ .+...+..+..++...++
T Consensus       558 ~~al~l~P-~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSR-HFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTST-THHHHHHHHHHHTC----
T ss_pred             HhhcccCc-ccHHHHHHHHHHHHccCC
Confidence            99887664 356778888888777665

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.63  E-value=1.9e-13  Score=96.11  Aligned_cols=174  Identities=13%  Similarity=0.125  Sum_probs=142.2

Q ss_pred             cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCc---HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC--ccHHH
Q 027412           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN---SITFTILIDAFCKEGRMDDATMMFSKMLEKGPK--ANVVT   99 (223)
Q Consensus        25 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~   99 (223)
                      .+...+..+...+.+.|++++|...|+++.+..+. +   ...+..+..++.+.|++++|+..|++..+..|.  .....
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            45777888889999999999999999999876433 3   678888999999999999999999999997653  13556


Q ss_pred             HHHHHHHHHh--------hCChhHHHHHHHHHHHCCCCCChhHH-----------------HHHHHHHHhcCCHHHHHHH
Q 027412          100 YSCLIDGYFK--------SQNMKSAFDVYEEMCENNISPNIVSY-----------------SILIDGLCKRGLMEEALYA  154 (223)
Q Consensus       100 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~~~~~~a~~~  154 (223)
                      +..+..++..        .|++++|...|+++.+.. |.+....                 ..+...|.+.|++++|...
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  170 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVT  170 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            7778888988        999999999999998864 3344444                 5668889999999999999


Q ss_pred             HHHHHhCCCCC--CHHHHHHHHHHHHhc----------CCcchHHHHHHHHHHCCCCCch
Q 027412          155 FHCALDNHLLP--DVVTYAILIRGYCKA----------GRPTEAMQLYDSMLRNGIMPDG  202 (223)
Q Consensus       155 ~~~~~~~~~~~--~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~p~~  202 (223)
                      |+++.+..+..  ....+..+..++...          |++++|...++++.+.  .|+.
T Consensus       171 ~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~  228 (261)
T 3qky_A          171 YEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPDS  228 (261)
T ss_dssp             HHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCCC
Confidence            99998765432  356788888888876          8889999999999984  5654

>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=99.61  E-value=1.7e-13  Score=86.03  Aligned_cols=128  Identities=24%  Similarity=0.369  Sum_probs=62.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK  144 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  144 (223)
                      +..+...+...|++++|..+++++.+.++. +...+..+...+...|++++|...++++...+ +.+...+..++..+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            334444444455555555555554444332 34444444555555555555555555544432 3334444455555555


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          145 RGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       145 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      .|++++|.+.++++.+..+ .+...+..+...+...|++++|...++++.+
T Consensus        82 ~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            5555555555555544332 2344445555555555555555555555544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.61  E-value=5.6e-15  Score=110.36  Aligned_cols=218  Identities=15%  Similarity=0.091  Sum_probs=162.6

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCH----HHHHHHHHHHHhcCchhHHHHHHHHHHhC----C-CCCcHHHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDI----ITYNTIICGYCSLNRLDEAVQLFEKLTCV----Q-LKPNSITFTILIDAF   72 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~   72 (223)
                      +...|++++|+..|+++.+.+.. +.    ..+..+..++...|++++|...+++..+.    + ......++..+...|
T Consensus        58 ~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~  136 (411)
T 4a1s_A           58 LCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTL  136 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHH
Confidence            45679999999999999887433 33    57889999999999999999999987653    1 122456788899999


Q ss_pred             HhcCChhHHHHHHHHHHhcC-----CCccHHHHHHHHHHHHhhCC-----------------hhHHHHHHHHHHHC----
Q 027412           73 CKEGRMDDATMMFSKMLEKG-----PKANVVTYSCLIDGYFKSQN-----------------MKSAFDVYEEMCEN----  126 (223)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~~~~~----  126 (223)
                      ...|++++|...+++.....     ......++..+...|...|+                 +++|...+++..+.    
T Consensus       137 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~  216 (411)
T 4a1s_A          137 KVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDL  216 (411)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHc
Confidence            99999999999999877641     12245578889999999999                 99999998887642    


Q ss_pred             CC-CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCCcchHHHHHHHHHHCCC--
Q 027412          127 NI-SPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL-PD----VVTYAILIRGYCKAGRPTEAMQLYDSMLRNGI--  198 (223)
Q Consensus       127 ~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--  198 (223)
                      +. +....++..+...+...|++++|...+++..+.... ++    ...+..+..++...|++++|...+++..+...  
T Consensus       217 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  296 (411)
T 4a1s_A          217 GDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVEL  296 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHc
Confidence            11 122357888899999999999999999988753210 11    23778889999999999999999998876411  


Q ss_pred             C---CchhhHHHHhhhHhhcCCCcc
Q 027412          199 M---PDGLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       199 ~---p~~~~~~~l~~~~~~~~~~~~  220 (223)
                      .   ....++..+...+...|+.++
T Consensus       297 ~~~~~~~~~~~~la~~~~~~g~~~~  321 (411)
T 4a1s_A          297 GEREVEAQSCYSLGNTYTLLHEFNT  321 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            0   113456666666766665443

>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=99.60  E-value=3.8e-14  Score=91.32  Aligned_cols=140  Identities=13%  Similarity=0.022  Sum_probs=72.4

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      ...|++++|+..+....... +-+...+..+..+|.+.|++++|++.|++..+..+. +..+|..+..+|...|++++|+
T Consensus         8 ~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~   85 (150)
T 4ga2_A            8 RSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTDKAV   85 (150)
T ss_dssp             CCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchHHHH
Confidence            34455566665555554431 112333445555555666666666666655554322 4555555555666666666666


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHH-HHHHHHCCCCCChhHHHHHHHHHHhcC
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDV-YEEMCENNISPNIVSYSILIDGLCKRG  146 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~  146 (223)
                      ..|++..+.+|. +..+|..+..+|.+.|+++++... ++++.+.. |.++.+|......+...|
T Consensus        86 ~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           86 ECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            666655555544 455555555555555555544332 35555442 334445554444444444

>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=99.60  E-value=3.1e-13  Score=84.78  Aligned_cols=131  Identities=21%  Similarity=0.346  Sum_probs=113.8

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHH
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF  108 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  108 (223)
                      .+..+...+...|++++|..+++++.+... .+...+..+...+...|++++|...++++...++. +...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCC-chHHHHHHHHHHH
Confidence            577888889999999999999999887653 36778888999999999999999999999888765 6778888999999


Q ss_pred             hhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412          109 KSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus       109 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ..|++++|...++++.... +.+..++..++..+...|++++|...++++.+..
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            9999999999999998764 5567888899999999999999999999887654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.59  E-value=1.7e-13  Score=93.17  Aligned_cols=166  Identities=15%  Similarity=0.090  Sum_probs=130.1

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHH----------------HHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNT----------------IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITF   65 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   65 (223)
                      +.+.|++++|+..|++..+..+ .+...|..                +..++.+.|++++|+..|++..+..+. +...+
T Consensus        14 ~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~   91 (208)
T 3urz_A           14 AIEAGQNGQAVSYFRQTIALNI-DRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAPN-NVDCL   91 (208)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCH-HHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCC-CChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHH
Confidence            4578999999999999988742 24556777                899999999999999999999987643 78899


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCC--hhHHHHHHHHHHHCCCCCChhHHHHHHHHHH
Q 027412           66 TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN--MKSAFDVYEEMCENNISPNIVSYSILIDGLC  143 (223)
Q Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  143 (223)
                      ..+..++...|++++|+..|++..+.+|. +..+|..+..+|...|+  .+.+...++....  ..|....+.....++.
T Consensus        92 ~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~  168 (208)
T 3urz_A           92 EACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYARYRDGLSKL  168 (208)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHH
Confidence            99999999999999999999999999887 88899999998876654  4455666666543  2333345556677788


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 027412          144 KRGLMEEALYAFHCALDNHLLPDVVTYAILI  174 (223)
Q Consensus       144 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  174 (223)
                      ..|++++|...|++.++..  |+......+.
T Consensus       169 ~~~~~~~A~~~~~~al~l~--P~~~~~~~l~  197 (208)
T 3urz_A          169 FTTRYEKARNSLQKVILRF--PSTEAQKTLD  197 (208)
T ss_dssp             HHHTHHHHHHHHHHHTTTS--CCHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHHhC--CCHHHHHHHH
Confidence            8999999999999998765  5655444433

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.59  E-value=5.1e-14  Score=104.41  Aligned_cols=215  Identities=11%  Similarity=0.037  Sum_probs=157.6

Q ss_pred             cccccCHHHHHHHHHHHhhC----CCCc-CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC------CCcHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDR----GLEP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL------KPNSITFTILID   70 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~~l~~   70 (223)
                      +...|++++|+..|++..+.    +.++ ...++..+..++...|++++|...+++..+...      .....+++.+..
T Consensus       113 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  192 (383)
T 3ulq_A          113 ELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFAT  192 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHH
Confidence            35679999999999998764    1111 246788999999999999999999998865311      112457888999


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCC-----ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC----CC-CCChhHHHHHHH
Q 027412           71 AFCKEGRMDDATMMFSKMLEKGPK-----ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN----NI-SPNIVSYSILID  140 (223)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~  140 (223)
                      +|...|++++|...+++..+....     ....++..+..+|...|++++|...+++..+.    +. +....++..+..
T Consensus       193 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  272 (383)
T 3ulq_A          193 NFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQ  272 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHH
Confidence            999999999999999988764211     12247888999999999999999999998862    22 445678899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCC----CCCCHHHHHHHHHHHHhcCC---cchHHHHHHHHHHCCCCCch-hhHHHHhhhH
Q 027412          141 GLCKRGLMEEALYAFHCALDNH----LLPDVVTYAILIRGYCKAGR---PTEAMQLYDSMLRNGIMPDG-LLLSTLADYN  212 (223)
Q Consensus       141 ~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~  212 (223)
                      .+.+.|++++|...+++..+..    -......+..+...+...|+   +++|..++++.   +..|+. ..+..+...|
T Consensus       273 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y  349 (383)
T 3ulq_A          273 IHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYY  349 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHH
Confidence            9999999999999999887531    11122335677788888888   66666666654   334443 3455555666


Q ss_pred             hhcCCCc
Q 027412          213 LQSSGSQ  219 (223)
Q Consensus       213 ~~~~~~~  219 (223)
                      ...|+.+
T Consensus       350 ~~~g~~~  356 (383)
T 3ulq_A          350 HERKNFQ  356 (383)
T ss_dssp             HHTTCHH
T ss_pred             HHCCCHH
Confidence            6666544

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.59  E-value=8.4e-14  Score=99.58  Aligned_cols=200  Identities=13%  Similarity=-0.023  Sum_probs=123.3

Q ss_pred             ccccCHHHHHHHHHHHhhC----CCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC---CC--cHHHHHHHHHHH
Q 027412            3 IKECHLDAALKLFGQLTDR----GLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL---KP--NSITFTILIDAF   72 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~   72 (223)
                      ...|++++|++.|++..+.    |.+++ ..+|+.+..+|...|++++|+..+++..+...   .+  -..+++.+...|
T Consensus        48 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~  127 (292)
T 1qqe_A           48 RLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEIL  127 (292)
T ss_dssp             HHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            3567777777777766543    21112 45777888888888888888888877754321   11  134677778888


Q ss_pred             Hhc-CChhHHHHHHHHHHhcCCCc-----cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCCh------hHHHHHHH
Q 027412           73 CKE-GRMDDATMMFSKMLEKGPKA-----NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI------VSYSILID  140 (223)
Q Consensus        73 ~~~-~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~  140 (223)
                      ... |++++|+..|++..+..+..     ...++..+...+...|++++|...|++..+.......      ..+..+..
T Consensus       128 ~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  207 (292)
T 1qqe_A          128 ENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGL  207 (292)
T ss_dssp             HHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHH
T ss_pred             HHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHH
Confidence            875 88888888888776643211     1345777788888888888888888888765322111      14666777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCC-C---HHHHHHHHHHHH--hcCCcchHHHHHHHHHHCCCCCchhh
Q 027412          141 GLCKRGLMEEALYAFHCALDNHLLP-D---VVTYAILIRGYC--KAGRPTEAMQLYDSMLRNGIMPDGLL  204 (223)
Q Consensus       141 ~~~~~~~~~~a~~~~~~~~~~~~~~-~---~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~~~p~~~~  204 (223)
                      ++...|++++|...+++..+..+.. +   ...+..++.++.  ..+++++|+..|+++..  +.|+...
T Consensus       208 ~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~--l~~~~~~  275 (292)
T 1qqe_A          208 CQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR--LDKWKIT  275 (292)
T ss_dssp             HHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC--CCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc--cHHHHHH
Confidence            7888888888888888776543211 1   112344455543  33456666666655443  3454433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.59  E-value=2.1e-13  Score=95.89  Aligned_cols=179  Identities=10%  Similarity=0.020  Sum_probs=138.4

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcC---HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC--CcHHHHHHHHHHHHh--
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPD---IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK--PNSITFTILIDAFCK--   74 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~--   74 (223)
                      +.+.|++++|+..|+++.+..+. +   ..++..+..++...|++++|...|+++.+..+.  ....++..+..++..  
T Consensus        25 ~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~  103 (261)
T 3qky_A           25 FYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLS  103 (261)
T ss_dssp             HHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhc
Confidence            45789999999999999987432 3   678899999999999999999999999876431  235677888999998  


Q ss_pred             ------cCChhHHHHHHHHHHhcCCCccHHHH-----------------HHHHHHHHhhCChhHHHHHHHHHHHCCCCC-
Q 027412           75 ------EGRMDDATMMFSKMLEKGPKANVVTY-----------------SCLIDGYFKSQNMKSAFDVYEEMCENNISP-  130 (223)
Q Consensus        75 ------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-  130 (223)
                            .|++++|+..|+++.+..|. +....                 ..+..+|...|++++|...|+++.+.. +. 
T Consensus       104 ~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~-p~~  181 (261)
T 3qky_A          104 PPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAY-PDT  181 (261)
T ss_dssp             CCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTS
T ss_pred             ccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCC
Confidence                  99999999999999998765 33333                 557889999999999999999998763 22 


Q ss_pred             --ChhHHHHHHHHHHhc----------CCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCc
Q 027412          131 --NIVSYSILIDGLCKR----------GLMEEALYAFHCALDNHLLPD--VVTYAILIRGYCKAGRP  183 (223)
Q Consensus       131 --~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~  183 (223)
                        ....+..+..+|...          |++++|...|+++.+..+...  ......+...+...+++
T Consensus       182 ~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~~~~~~~~~  248 (261)
T 3qky_A          182 PWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTRARQRLTEL  248 (261)
T ss_dssp             TTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHHHHh
Confidence              345788888888876          899999999999987654221  23344444444444433

>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=99.58  E-value=2e-14  Score=92.57  Aligned_cols=142  Identities=13%  Similarity=0.030  Sum_probs=72.5

Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhH
Q 027412           36 GYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKS  115 (223)
Q Consensus        36 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  115 (223)
                      ++...|++++|+..++....... .+...+..+..+|.+.|++++|++.|++.++.+|. +..+|..+..++...|++++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~p-~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSPR-QKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSHH-HHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcChHHHHHHHHHHhcccCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchHH
Confidence            34445555555555555543211 12233444555555666666666666665555544 55555555556666666666


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHH-HHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 027412          116 AFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYA-FHCALDNHLLPDVVTYAILIRGYCKAG  181 (223)
Q Consensus       116 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g  181 (223)
                      |...|++..+.+ |.+..++..+...|.+.|++++|.+. +++..+..+ -++.+|......+...|
T Consensus        84 A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P-~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           84 AVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFP-GSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHST-TCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhC
Confidence            666665555543 33455555555555555555443332 345544433 24444544444444444

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.58  E-value=2.2e-12  Score=99.72  Aligned_cols=205  Identities=11%  Similarity=0.092  Sum_probs=148.3

Q ss_pred             HHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh-------cCchh-------HHHHHHHHHHhCCCCCcHHHHHHHHHHHHh
Q 027412            9 DAALKLFGQLTDRGLEPDIITYNTIICGYCS-------LNRLD-------EAVQLFEKLTCVQLKPNSITFTILIDAFCK   74 (223)
Q Consensus         9 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   74 (223)
                      ++|+.+|++..... +.++..|..++..+.+       .|+++       +|..++++..+.-.+.+...|..++..+.+
T Consensus       255 ~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~  333 (530)
T 2ooe_A          255 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  333 (530)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            36677888877653 3367788888887775       68876       889999988752223367888888888888


Q ss_pred             cCChhHHHHHHHHHHhcCCCcc-HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHH-HHhcCCHHHHH
Q 027412           75 EGRMDDATMMFSKMLEKGPKAN-VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDG-LCKRGLMEEAL  152 (223)
Q Consensus        75 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  152 (223)
                      .|++++|..+|+++.+..+. + ...|..++..+.+.|++++|..+|++..+.. +.+...+...+.. +...|++++|.
T Consensus       334 ~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             TTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             cCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHH
Confidence            99999999999998886543 3 3578888888888899999999999988753 3333344333322 33588999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCC-CCCc--hhhHHHHhhhHhhcCC
Q 027412          153 YAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNG-IMPD--GLLLSTLADYNLQSSG  217 (223)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~p~--~~~~~~l~~~~~~~~~  217 (223)
                      .+|++.++..+ .+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+......|+
T Consensus       412 ~~~e~al~~~p-~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~  478 (530)
T 2ooe_A          412 KIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGD  478 (530)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHCC-CCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCC
Confidence            99998887654 367888888888889999999999999988863 2332  2255555555444443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.57  E-value=1.6e-12  Score=89.33  Aligned_cols=170  Identities=11%  Similarity=0.046  Sum_probs=120.8

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC-C-cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccH--HHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK-P-NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANV--VTYS  101 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  101 (223)
                      +...+..+...+.+.|++++|+..|+++.+..+. | ....+..++.++.+.|++++|+..|+++.+..|....  ..+.
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            3445566667777788888888888887765322 1 2356667778888888888888888888776654221  2444


Q ss_pred             HHHHHHHh------------------hCChhHHHHHHHHHHHCCCCCChhHH-----------------HHHHHHHHhcC
Q 027412          102 CLIDGYFK------------------SQNMKSAFDVYEEMCENNISPNIVSY-----------------SILIDGLCKRG  146 (223)
Q Consensus       102 ~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~~  146 (223)
                      .+..++..                  .|++++|...|+++.+.. |.+....                 ..+...|.+.|
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~  161 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERG  161 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            45555443                  567888888888888753 3333332                 34567788999


Q ss_pred             CHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          147 LMEEALYAFHCALDNHLLPD--VVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       147 ~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      ++++|...|+++.+..+...  ...+..+..++.+.|++++|.+.++.+...
T Consensus       162 ~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          162 AWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             CHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence            99999999999987654321  357888999999999999999999998885

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.57  E-value=5.7e-13  Score=95.04  Aligned_cols=169  Identities=13%  Similarity=0.046  Sum_probs=142.3

Q ss_pred             CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHH
Q 027412           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (223)
Q Consensus        24 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (223)
                      +.+...+..+...+...|++++|...|++..+..+. +...+..+...+.+.|++++|...++++....+. ........
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~-~~~~~~~~  191 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQD-TRYQGLVA  191 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCS-HHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcc-hHHHHHHH
Confidence            445677888889999999999999999999887543 7788999999999999999999999999887664 33333444


Q ss_pred             HHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCC
Q 027412          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLP-DVVTYAILIRGYCKAGR  182 (223)
Q Consensus       104 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~  182 (223)
                      ...+...++.++|...+++..... |.+...+..+...+...|++++|...|.++.+..+.. +...+..++..+...|+
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCT
T ss_pred             HHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCC
Confidence            455778888999999999998875 7788999999999999999999999999999876532 26789999999999999


Q ss_pred             cchHHHHHHHHHH
Q 027412          183 PTEAMQLYDSMLR  195 (223)
Q Consensus       183 ~~~a~~~~~~~~~  195 (223)
                      .++|...+++...
T Consensus       271 ~~~a~~~~r~al~  283 (287)
T 3qou_A          271 GDALASXYRRQLY  283 (287)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHH
Confidence            9999999987654

>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=99.57  E-value=2.8e-13  Score=89.57  Aligned_cols=163  Identities=12%  Similarity=0.024  Sum_probs=128.9

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHH-H
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG-Y  107 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~  107 (223)
                      .+..+...+...|++++|...|++..+..+ .+...+..+..++...|++++|+..+++.....+  +...+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQ-SRGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHH-TSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHH
Confidence            456677788899999999999999876643 3678888999999999999999999999877655  44443333222 2


Q ss_pred             HhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCcchH
Q 027412          108 FKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLP-DVVTYAILIRGYCKAGRPTEA  186 (223)
Q Consensus       108 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a  186 (223)
                      ...++...+...+++..+.. |.+...+..+..++...|++++|...|+++.+..+.+ +...+..+..++...|+.++|
T Consensus        85 ~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            23334455788899988764 5678899999999999999999999999999877643 356888999999999999999


Q ss_pred             HHHHHHHHH
Q 027412          187 MQLYDSMLR  195 (223)
Q Consensus       187 ~~~~~~~~~  195 (223)
                      ...|++.+.
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999987764

>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=99.57  E-value=3.1e-13  Score=105.29  Aligned_cols=155  Identities=7%  Similarity=0.007  Sum_probs=123.6

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      .|++++|++.|++..+.. +.+...+..+...+...|++++|...+++..+.... +...+..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478999999999988764 336788999999999999999999999999987633 688899999999999999999999


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc---CCHHHHHHHHHHHHhC
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR---GLMEEALYAFHCALDN  161 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~  161 (223)
                      +++..+..+. +...+..+..++...|++++|...+++..+.. +.+...+..+..++...   |++++|.+.+++..+.
T Consensus        80 ~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            9999998776 78899999999999999999999999999875 56788999999999999   9999999999999877


Q ss_pred             CC
Q 027412          162 HL  163 (223)
Q Consensus       162 ~~  163 (223)
                      ++
T Consensus       158 ~p  159 (568)
T 2vsy_A          158 GV  159 (568)
T ss_dssp             TC
T ss_pred             CC
Confidence            65

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.57  E-value=1.7e-12  Score=100.31  Aligned_cols=189  Identities=12%  Similarity=0.138  Sum_probs=153.8

Q ss_pred             ccCHH-------HHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCc-HHHHHHHHHHHHhcC
Q 027412            5 ECHLD-------AALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN-SITFTILIDAFCKEG   76 (223)
Q Consensus         5 ~g~~~-------~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~   76 (223)
                      .|+++       +|+.+|++..+.-.+.+...|..++..+.+.|++++|..+|+++.+..+. + ...|..++..+.+.|
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~  370 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAE  370 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhc
Confidence            57776       89999999986322446889999999999999999999999999986422 3 358999999999999


Q ss_pred             ChhHHHHHHHHHHhcCCCccHHHHHHHHHH-HHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHH
Q 027412           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDG-YFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAF  155 (223)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  155 (223)
                      ++++|..+|++..+..+. +...|...+.. +...|++++|..+|+...+.. +.+...|..++..+.+.|+.++|..+|
T Consensus       371 ~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~  448 (530)
T 2ooe_A          371 GIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLF  448 (530)
T ss_dssp             HHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHH
Confidence            999999999999886443 34444333333 346899999999999998864 557889999999999999999999999


Q ss_pred             HHHHhCCC-CC--CHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          156 HCALDNHL-LP--DVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       156 ~~~~~~~~-~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      ++.....+ .|  ....|...+......|+.+.+..++.++.+.
T Consensus       449 ~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          449 ERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99998643 22  2558888888888999999999999999874

>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=99.56  E-value=1.9e-12  Score=88.18  Aligned_cols=179  Identities=11%  Similarity=0.018  Sum_probs=148.9

Q ss_pred             HHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcC----ChhHHHHH
Q 027412            9 DAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG----RMDDATMM   84 (223)
Q Consensus         9 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~   84 (223)
                      .+|++.|++..+.|   ++..+..+...|...+++++|+.+|++..+.+   ++..+..|...|.. +    ++++|.+.
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            35788898888764   77889999999999999999999999998865   66778888888888 6    89999999


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHh----hCChhHHHHHHHHHHHCCCC-CChhHHHHHHHHHHh----cCCHHHHHHHH
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNIS-PNIVSYSILIDGLCK----RGLMEEALYAF  155 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~  155 (223)
                      |++..+.+   ++..+..|...|..    .+++++|..+|++..+.+.. .+...+..|...|..    .+++++|..+|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            99998764   56788888888887    88999999999999987621 127888999999998    88999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhc-C-----CcchHHHHHHHHHHCCCC
Q 027412          156 HCALDNHLLPDVVTYAILIRGYCKA-G-----RPTEAMQLYDSMLRNGIM  199 (223)
Q Consensus       156 ~~~~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~~~~  199 (223)
                      ++..+.+  .+...+..+...|... |     ++++|..+|++..+.|..
T Consensus       153 ~~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          153 KGSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            9998872  3445677788887654 3     899999999999987743

>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=5.3e-14  Score=101.77  Aligned_cols=217  Identities=17%  Similarity=0.123  Sum_probs=158.4

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcC----HHHHHHHHHHHHhcCchhHHHHHHHHHHhC----CCC-CcHHHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPD----IITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLK-PNSITFTILIDAF   72 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~   72 (223)
                      +...|++++|+..|+++.+.... +    ...+..+...+...|++++|...+++..+.    +.. ....++..+...+
T Consensus        15 ~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~   93 (338)
T 3ro2_A           15 LCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTL   93 (338)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHH
Confidence            45789999999999999887433 3    467888999999999999999999887543    111 2356788899999


Q ss_pred             HhcCChhHHHHHHHHHHhcCCC-----ccHHHHHHHHHHHHhhCC--------------------hhHHHHHHHHHHHC-
Q 027412           73 CKEGRMDDATMMFSKMLEKGPK-----ANVVTYSCLIDGYFKSQN--------------------MKSAFDVYEEMCEN-  126 (223)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~-  126 (223)
                      ...|++++|...+++..+....     ....++..+...+...|+                    +++|...+++.... 
T Consensus        94 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~  173 (338)
T 3ro2_A           94 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLV  173 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999887664211     113478888899999999                    99999988877542 


Q ss_pred             ---C-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC-
Q 027412          127 ---N-ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL-----LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN-  196 (223)
Q Consensus       127 ---~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-  196 (223)
                         + .+....++..+...+...|++++|...+++..+...     .....++..+...+...|++++|...+++..+. 
T Consensus       174 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  253 (338)
T 3ro2_A          174 TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLA  253 (338)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence               1 112244778888899999999999999988764311     111337788888899999999999999888753 


Q ss_pred             ---CCCCc-hhhHHHHhhhHhhcCCCc
Q 027412          197 ---GIMPD-GLLLSTLADYNLQSSGSQ  219 (223)
Q Consensus       197 ---~~~p~-~~~~~~l~~~~~~~~~~~  219 (223)
                         +-.+. ..++..+...+...|+.+
T Consensus       254 ~~~~~~~~~~~~~~~la~~~~~~g~~~  280 (338)
T 3ro2_A          254 RQLKDRAVEAQSCYSLGNTYTLLQDYE  280 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HhhcchhHHHHHHHHHHHHHHHhcCHH
Confidence               11111 345556666666666543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.55  E-value=5.1e-14  Score=104.70  Aligned_cols=217  Identities=17%  Similarity=0.117  Sum_probs=161.3

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcC----HHHHHHHHHHHHhcCchhHHHHHHHHHHhC----CCCC-cHHHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPD----IITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKP-NSITFTILIDAF   72 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~   72 (223)
                      +.+.|++++|+..|+++.+.... +    ...+..+..++...|++++|...+++....    +..| ...++..+...+
T Consensus        19 ~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~   97 (406)
T 3sf4_A           19 LCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTL   97 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            45789999999999999887433 3    357888999999999999999999987543    2112 255788899999


Q ss_pred             HhcCChhHHHHHHHHHHhcCCC-----ccHHHHHHHHHHHHhhCC--------------------hhHHHHHHHHHHHC-
Q 027412           73 CKEGRMDDATMMFSKMLEKGPK-----ANVVTYSCLIDGYFKSQN--------------------MKSAFDVYEEMCEN-  126 (223)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~-  126 (223)
                      ...|++++|...+++.....+.     ....++..+...+...|+                    +++|...+++.... 
T Consensus        98 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~  177 (406)
T 3sf4_A           98 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLV  177 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999988764221     124478889999999999                    99999999887643 


Q ss_pred             ---C-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCCcchHHHHHHHHHHC-
Q 027412          127 ---N-ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL-PD----VVTYAILIRGYCKAGRPTEAMQLYDSMLRN-  196 (223)
Q Consensus       127 ---~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-  196 (223)
                         + .+....++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..+. 
T Consensus       178 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  257 (406)
T 3sf4_A          178 TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLA  257 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence               1 1122457888899999999999999999988743110 11    347888899999999999999999988753 


Q ss_pred             ---CCCCc-hhhHHHHhhhHhhcCCCc
Q 027412          197 ---GIMPD-GLLLSTLADYNLQSSGSQ  219 (223)
Q Consensus       197 ---~~~p~-~~~~~~l~~~~~~~~~~~  219 (223)
                         +-.+. ..++..+...+...|+.+
T Consensus       258 ~~~~~~~~~~~~~~~la~~~~~~g~~~  284 (406)
T 3sf4_A          258 RQLKDRAVEAQSCYSLGNTYTLLQDYE  284 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HhCcCchHHHHHHHHHHHHHHHhCcHH
Confidence               11111 345666666676666544

>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=99.54  E-value=5.6e-13  Score=103.81  Aligned_cols=153  Identities=12%  Similarity=-0.007  Sum_probs=122.6

Q ss_pred             cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHH
Q 027412           40 LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDV  119 (223)
Q Consensus        40 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  119 (223)
                      .|++++|...+++..+... .+...+..+...+...|++++|...+++..+..+. +...+..+..++...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRP-QDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4788999999999887653 36788999999999999999999999999998776 788999999999999999999999


Q ss_pred             HHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHC
Q 027412          120 YEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA---GRPTEAMQLYDSMLRN  196 (223)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~  196 (223)
                      +++..+.. +.+...+..+..++...|++++|.+.+++..+..+ .+...+..+..++...   |++++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99999875 66788999999999999999999999999988765 4678899999999999   9999999999999885

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.54  E-value=2.5e-13  Score=97.12  Aligned_cols=171  Identities=13%  Similarity=-0.038  Sum_probs=133.0

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhC----CCCC-cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC---c--cHH
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKP-NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK---A--NVV   98 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~   98 (223)
                      .|......|...|++++|...|++..+.    +..+ ...+|+.+..+|...|++++|+..+++.....+.   +  ...
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  118 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            4555677888999999999999988654    2122 2568999999999999999999999988765321   1  145


Q ss_pred             HHHHHHHHHHhh-CChhHHHHHHHHHHHCCCCC-C----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-----
Q 027412           99 TYSCLIDGYFKS-QNMKSAFDVYEEMCENNISP-N----IVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDV-----  167 (223)
Q Consensus        99 ~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----  167 (223)
                      +++.+..+|... |++++|+..|++..+..... +    ..++..+...+.+.|++++|+..|++..+..+....     
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  198 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHH
Confidence            788899999996 99999999999988642100 1    357889999999999999999999999986543221     


Q ss_pred             -HHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc
Q 027412          168 -VTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD  201 (223)
Q Consensus       168 -~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  201 (223)
                       ..+..+..++...|++++|...+++..+  +.|+
T Consensus       199 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~  231 (292)
T 1qqe_A          199 KDYFLKKGLCQLAATDAVAAARTLQEGQS--EDPN  231 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGC--C---
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCC
Confidence             2677888899999999999999999886  3454

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.54  E-value=1.6e-14  Score=107.89  Aligned_cols=219  Identities=13%  Similarity=0.066  Sum_probs=162.2

Q ss_pred             cccccCHHHHHHHHHHHhhC----CC-CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCC-----CCCcHHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDR----GL-EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-----LKPNSITFTILIDA   71 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~   71 (223)
                      |...|++++|+..|++..+.    +. +.....+..+..++...|++++|...+++..+..     ......++..+...
T Consensus        96 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  175 (411)
T 4a1s_A           96 YFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNV  175 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHH
Confidence            45679999999999987653    11 2235678889999999999999999999876541     12234578889999


Q ss_pred             HHhcCC-----------------hhHHHHHHHHHHhc----CC-CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCC
Q 027412           72 FCKEGR-----------------MDDATMMFSKMLEK----GP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS  129 (223)
Q Consensus        72 ~~~~~~-----------------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  129 (223)
                      |...|+                 +++|...+++..+.    +. .....++..+...+...|++++|...+++..+....
T Consensus       176 ~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  255 (411)
T 4a1s_A          176 YHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIARE  255 (411)
T ss_dssp             HHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            999999                 99999998877553    11 123457888999999999999999999988764200


Q ss_pred             -CC----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----CCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC---
Q 027412          130 -PN----IVSYSILIDGLCKRGLMEEALYAFHCALDNHLL-----PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN---  196 (223)
Q Consensus       130 -~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---  196 (223)
                       ++    ..++..+...|...|++++|...+++..+....     ....++..+...+...|++++|...+++..+.   
T Consensus       256 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  335 (411)
T 4a1s_A          256 FGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQE  335 (411)
T ss_dssp             HTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence             11    237888999999999999999999988753210     12567888999999999999999999998764   


Q ss_pred             -CCCCc-hhhHHHHhhhHhhcCCCcc
Q 027412          197 -GIMPD-GLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       197 -~~~p~-~~~~~~l~~~~~~~~~~~~  220 (223)
                       +-.+. ..++..+...+.+.|+.++
T Consensus       336 ~~~~~~~~~~~~~la~~~~~~g~~~~  361 (411)
T 4a1s_A          336 LGDRIGEARACWSLGNAHSAIGGHER  361 (411)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHhccHHH
Confidence             11111 2356666677777665543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.54  E-value=5.7e-12  Score=89.46  Aligned_cols=186  Identities=13%  Similarity=0.089  Sum_probs=132.9

Q ss_pred             HHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC-CCcHHHHHHHHHHHHhcCChhHHHHHHHHHH
Q 027412           11 ALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-KPNSITFTILIDAFCKEGRMDDATMMFSKML   89 (223)
Q Consensus        11 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   89 (223)
                      |+..|++....+ +++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++|.
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            556677666554 44566667888899999999999999998876653 2367788888999999999999999999998


Q ss_pred             hcCC---CccHHHHHHHHHH--HHhhC--ChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           90 EKGP---KANVVTYSCLIDG--YFKSQ--NMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        90 ~~~~---~~~~~~~~~l~~~--~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      +..+   ..+..+...++.+  ....|  ++++|..+|+++...  .|+..+...+..++.+.|++++|.+.++.+.+..
T Consensus       164 ~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          164 NAIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             HHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             hcCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            7643   1124444555555  33334  899999999998764  4543333444448889999999999998765431


Q ss_pred             ---------CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          163 ---------LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       163 ---------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                               -+.++.+...++......|+  +|.+++.++.+.  .|+..
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~hp  287 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEHA  287 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCCH
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCCh
Confidence                     02367777677777777786  888999999884  56644

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.53  E-value=4.6e-12  Score=96.28  Aligned_cols=197  Identities=19%  Similarity=0.117  Sum_probs=149.6

Q ss_pred             ccccCHHHHHHHHHHHhhC--------CCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCC-------CCCcHHHHHH
Q 027412            3 IKECHLDAALKLFGQLTDR--------GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-------LKPNSITFTI   67 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~   67 (223)
                      ...|++++|++.|++..+.        ..+....+|+.+..+|...|++++|...+++..+..       ......++..
T Consensus        62 ~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~  141 (472)
T 4g1t_A           62 HLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCE  141 (472)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHH
Confidence            4679999999999987542        112246789999999999999999999998875421       1123566776


Q ss_pred             HHHHHHhc--CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHH---hhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           68 LIDAFCKE--GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF---KSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        68 l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      +..++...  +++++|+..|++..+..|. ++..+..+..++.   ..++.++|++.+++..+.+ +.+..++..+...+
T Consensus       142 ~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~  219 (472)
T 4g1t_A          142 EGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKL  219 (472)
T ss_dssp             HHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHH
Confidence            66666554  5799999999999998776 6777766666544   4577788999999998875 56677777776665


Q ss_pred             Hh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhh
Q 027412          143 CK----RGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLL  204 (223)
Q Consensus       143 ~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  204 (223)
                      ..    .+++++|.+.+++.....+ .+...+..+...+...|++++|...+++..+.  .|+...
T Consensus       220 ~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~  282 (472)
T 4g1t_A          220 HKMREEGEEEGEGEKLVEEALEKAP-GVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAY  282 (472)
T ss_dssp             HHCC------CHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHH
Confidence            54    4678899999999887765 57788999999999999999999999999984  666443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.52  E-value=3.9e-11  Score=91.87  Aligned_cols=177  Identities=15%  Similarity=0.104  Sum_probs=107.4

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----cC
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EG   76 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~   76 (223)
                      .+++++|+..|++..+.|   +...+..|...|..    .+++++|..+|++..+.+   ++..+..|...|..    .+
T Consensus        56 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~  129 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKV  129 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCC
Confidence            466777777777766553   45566666666666    667777777777766543   44555556666666    56


Q ss_pred             ChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh----hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh----cCCH
Q 027412           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK----RGLM  148 (223)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~  148 (223)
                      ++++|...|++....+   +...+..+...|..    .+++++|..+|++..+.+   +...+..+...|..    .+++
T Consensus       130 ~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~  203 (490)
T 2xm6_A          130 DKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERND  203 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCH
Confidence            6777777776666543   34555556666655    556666666666666543   45556666666665    5666


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCcchHHHHHHHHHHC
Q 027412          149 EEALYAFHCALDNHLLPDVVTYAILIRGYCK----AGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       149 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~  196 (223)
                      ++|.++|++..+.+   +...+..+...|..    .+++++|..+|++..+.
T Consensus       204 ~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~  252 (490)
T 2xm6_A          204 AISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQ  252 (490)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            66666666665543   34445555555554    45566666666655543

>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=99.52  E-value=3.9e-13  Score=106.71  Aligned_cols=172  Identities=12%  Similarity=-0.018  Sum_probs=146.6

Q ss_pred             HhcCchhHHHHHHHHHH--------hCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh
Q 027412           38 CSLNRLDEAVQLFEKLT--------CVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK  109 (223)
Q Consensus        38 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  109 (223)
                      ...|++++|++.+++..        +.. +.+...+..+..++.+.|++++|+..|++..+.++. +...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHH
Confidence            77899999999999998        443 336678888999999999999999999999998776 78899999999999


Q ss_pred             hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHH
Q 027412          110 SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQL  189 (223)
Q Consensus       110 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  189 (223)
                      .|++++|...|+++.+.+ +.+...+..+..++.+.|++++ .+.|++..+.++ .+...|..+..++...|++++|...
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTND-GVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-chHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999999875 6678899999999999999999 999999998776 4778999999999999999999999


Q ss_pred             HHHHHHCCCCCch-hhHHHHhhhHhhcC
Q 027412          190 YDSMLRNGIMPDG-LLLSTLADYNLQSS  216 (223)
Q Consensus       190 ~~~~~~~~~~p~~-~~~~~l~~~~~~~~  216 (223)
                      |+++.+  +.|+. ..+..+..++...+
T Consensus       557 ~~~al~--l~P~~~~a~~~~~~~~~~~~  582 (681)
T 2pzi_A          557 LDEVPP--TSRHFTTARLTSAVTLLSGR  582 (681)
T ss_dssp             HHTSCT--TSTTHHHHHHHHHHHTC---
T ss_pred             HHhhcc--cCcccHHHHHHHHHHHHccC
Confidence            999887  46764 44555555554433

>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=2.6e-13  Score=95.87  Aligned_cols=159  Identities=20%  Similarity=0.127  Sum_probs=125.1

Q ss_pred             HhcCchhHHHHHHHHHHhC-------CCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc------CC-CccHHHHHHH
Q 027412           38 CSLNRLDEAVQLFEKLTCV-------QLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK------GP-KANVVTYSCL  103 (223)
Q Consensus        38 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l  103 (223)
                      ...|++++|+..+++..+.       ..+....++..+...+...|++++|...+++..+.      +. .....++..+
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            3456777777666666542       22335678899999999999999999999988765      21 2246688999


Q ss_pred             HHHHHhhCChhHHHHHHHHHHHC------C-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC------C-CCCCHHH
Q 027412          104 IDGYFKSQNMKSAFDVYEEMCEN------N-ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN------H-LLPDVVT  169 (223)
Q Consensus       104 ~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~  169 (223)
                      ..++...|++++|...++++...      . .+....++..+...+...|++++|...++++.+.      + ......+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999998864      1 1334678899999999999999999999998864      1 1124567


Q ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          170 YAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       170 ~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      +..+..++...|++++|...++++.+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            889999999999999999999998863

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.52  E-value=4.4e-11  Score=91.53  Aligned_cols=177  Identities=15%  Similarity=0.075  Sum_probs=103.8

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----cC
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EG   76 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~   76 (223)
                      .+++++|+..|++..+.|   ++..+..|...|..    .+++++|..+|++..+.+   ++..+..|...|..    .+
T Consensus        92 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~  165 (490)
T 2xm6_A           92 PQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTR  165 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCC
Confidence            466777777777766653   44555666666666    566777777777666553   44555556666665    56


Q ss_pred             ChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh----hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh----cCCH
Q 027412           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK----RGLM  148 (223)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~  148 (223)
                      ++++|.+.|++..+.+   +...+..+...|..    .+++++|..+|++..+.+   +...+..+...|..    .+++
T Consensus       166 d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~  239 (490)
T 2xm6_A          166 DYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDY  239 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCH
Confidence            6666666666666543   44555556666655    566666666666666543   34455555555554    5566


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCcchHHHHHHHHHHC
Q 027412          149 EEALYAFHCALDNHLLPDVVTYAILIRGYCK----AGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       149 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~  196 (223)
                      ++|.++|++..+.+   +...+..+...+..    .+++++|..+|++..+.
T Consensus       240 ~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~  288 (490)
T 2xm6_A          240 TQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQ  288 (490)
T ss_dssp             HHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHc
Confidence            66666666555442   33444444555544    55555555555555543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.52  E-value=1.5e-13  Score=102.20  Aligned_cols=193  Identities=18%  Similarity=0.101  Sum_probs=109.8

Q ss_pred             ccccCHHHHHHHHHHHhhCCCC-cC----HHHHHHHHHHHHhcCc--------------------hhHHHHHHHHHHhC-
Q 027412            3 IKECHLDAALKLFGQLTDRGLE-PD----IITYNTIICGYCSLNR--------------------LDEAVQLFEKLTCV-   56 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~-   56 (223)
                      ...|++++|+..+++..+.... ++    ..++..+..++...|+                    +++|...+++..+. 
T Consensus        98 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~  177 (406)
T 3sf4_A           98 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLV  177 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            3456666666666655442100 01    3356666666666666                    66666666655332 


Q ss_pred             ---CCC-CcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC-----ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC
Q 027412           57 ---QLK-PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK-----ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (223)
Q Consensus        57 ---~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  127 (223)
                         +.. ....++..+...+...|++++|...+++..+..+.     ....++..+..++...|++++|...+++.....
T Consensus       178 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  257 (406)
T 3sf4_A          178 TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLA  257 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence               111 11235566666666777777777777666543111     012356666677777777777777777665321


Q ss_pred             ----CCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC----C-CCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          128 ----ISP-NIVSYSILIDGLCKRGLMEEALYAFHCALDNHL----L-PDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       128 ----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                          .++ ...++..+...+...|++++|...+++..+...    . ....++..+..++...|++++|...+++..+
T Consensus       258 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          258 RQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                000 134566667777777777777777766653211    0 1144566667777777777777777776654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.51  E-value=4.5e-12  Score=87.15  Aligned_cols=160  Identities=12%  Similarity=0.059  Sum_probs=125.4

Q ss_pred             cccccCHHHHHHHHHHHhhCCCC-c-CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCc--HHHHHHHHHHHHh---
Q 027412            2 LIKECHLDAALKLFGQLTDRGLE-P-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN--SITFTILIDAFCK---   74 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~---   74 (223)
                      +.+.|++++|+..|+++.+..+. | ....+..+..++.+.|++++|+..|+++.+..+...  ..++..+..++..   
T Consensus        14 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~   93 (225)
T 2yhc_A           14 KLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDD   93 (225)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhh
Confidence            45789999999999999876432 1 246788899999999999999999999987653321  1245556666554   


Q ss_pred             ---------------cCChhHHHHHHHHHHhcCCCccHHHH-----------------HHHHHHHHhhCChhHHHHHHHH
Q 027412           75 ---------------EGRMDDATMMFSKMLEKGPKANVVTY-----------------SCLIDGYFKSQNMKSAFDVYEE  122 (223)
Q Consensus        75 ---------------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~~~~~~a~~~~~~  122 (223)
                                     .|++++|...|+++.+..|. +...+                 ..+...|.+.|++++|...|++
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~  172 (225)
T 2yhc_A           94 SALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEG  172 (225)
T ss_dssp             --------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence                           57899999999999988665 33332                 3456778999999999999999


Q ss_pred             HHHCCCCCCh---hHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412          123 MCENNISPNI---VSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus       123 ~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      +.+.. |.+.   ..+..+..++.+.|++++|.+.++.+...++
T Consensus       173 ~l~~~-p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          173 MLRDY-PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             HHHHS-TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             HHHHC-cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence            99863 3232   5788899999999999999999999887754

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.51  E-value=2.1e-12  Score=95.58  Aligned_cols=213  Identities=10%  Similarity=0.022  Sum_probs=155.1

Q ss_pred             ccccCHHHHHHHHHHHhhCCC-Cc----CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCC---C--CC-cHHHHHHHHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGL-EP----DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ---L--KP-NSITFTILIDA   71 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~--~~-~~~~~~~l~~~   71 (223)
                      ...|++++|+..|++..+... .+    ...++..+..+|...|+++.|...+++..+..   .  .+ ...+++.+..+
T Consensus       112 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  191 (378)
T 3q15_A          112 FDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGN  191 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHH
Confidence            467999999999999876411 11    25578889999999999999999999876531   1  11 24578889999


Q ss_pred             HHhcCChhHHHHHHHHHHhcC----C-CccHHHHHHHHHHHHhhCChhHHHHHHHHHHH-----CCCCCChhHHHHHHHH
Q 027412           72 FCKEGRMDDATMMFSKMLEKG----P-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE-----NNISPNIVSYSILIDG  141 (223)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~  141 (223)
                      |...|++++|...+++..+..    . .....++..+..+|...|++++|...+++...     .. +....++..+..+
T Consensus       192 y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la~~  270 (378)
T 3q15_A          192 YDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLSWT  270 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHHHH
Confidence            999999999999998887641    1 11245788899999999999999999999886     43 4447788999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCC----CCCCHHHHHHHHHHHHhcCC---cchHHHHHHHHHHCCCCCchh-hHHHHhhhHh
Q 027412          142 LCKRGLMEEALYAFHCALDNH----LLPDVVTYAILIRGYCKAGR---PTEAMQLYDSMLRNGIMPDGL-LLSTLADYNL  213 (223)
Q Consensus       142 ~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~  213 (223)
                      +.+.|++++|...+++..+..    -......+..+...+...++   +.+|+..+++   .+..|+.. .+..+...|.
T Consensus       271 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~  347 (378)
T 3q15_A          271 LCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFE  347 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHH
Confidence            999999999999999987632    11223456666667777777   6666666655   33344433 4444555555


Q ss_pred             hcCCCc
Q 027412          214 QSSGSQ  219 (223)
Q Consensus       214 ~~~~~~  219 (223)
                      ..|+.+
T Consensus       348 ~~g~~~  353 (378)
T 3q15_A          348 SSCHFE  353 (378)
T ss_dssp             HTTCHH
T ss_pred             HCCCHH
Confidence            555543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.51  E-value=6.7e-13  Score=98.40  Aligned_cols=192  Identities=8%  Similarity=-0.030  Sum_probs=147.6

Q ss_pred             cccccCHHHHHHHHHHHhhC--CC----CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC----C-CcHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDR--GL----EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL----K-PNSITFTILID   70 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~--~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~~~~~~l~~   70 (223)
                      |...|+++.|+..+++..+.  ..    +....+++.+..+|...|++++|...+++..+...    . ....++..+..
T Consensus       153 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~  232 (383)
T 3ulq_A          153 YYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGL  232 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            45679999999999987653  11    11245788999999999999999999998865421    1 12247888999


Q ss_pred             HHHhcCChhHHHHHHHHHHh-----cCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC----CCCCChhHHHHHHHH
Q 027412           71 AFCKEGRMDDATMMFSKMLE-----KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN----NISPNIVSYSILIDG  141 (223)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~  141 (223)
                      +|...|++++|...+++..+     ...+....++..+..++...|++++|...+++....    +-+.....+..+...
T Consensus       233 ~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~  312 (383)
T 3ulq_A          233 CKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSL  312 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999999999999999887     331335678899999999999999999999988753    112223346778888


Q ss_pred             HHhcCC---HHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          142 LCKRGL---MEEALYAFHCALDNHLLP-DVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       142 ~~~~~~---~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      +...|+   +++|+.++++.   +..| ....+..+...|...|++++|...+++..+.
T Consensus       313 ~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          313 YLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            888998   77777777765   2222 3456788999999999999999999998753

>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=99.50  E-value=6.8e-13  Score=87.71  Aligned_cols=155  Identities=12%  Similarity=0.073  Sum_probs=123.8

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHH-HHhcCChhH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDA-FCKEGRMDD   80 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~   80 (223)
                      +.+.|++++|+..|++..+.. +.+...+..+..++...|++++|...++++....+  +...+..+... +...+....
T Consensus        16 ~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~~~~~~~~~   92 (176)
T 2r5s_A           16 LLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLELHQQAAESP   92 (176)
T ss_dssp             HHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHHHHHHTSCH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHHHhhcccch
Confidence            457899999999999988764 33678899999999999999999999999876643  44444333222 223334456


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP-NIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      |...+++..+..|. +...+..+..++...|++++|...|+++.+....+ +...+..+..++...|+.++|...|++.+
T Consensus        93 a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A           93 ELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            78999999998776 78899999999999999999999999999864222 35689999999999999999999998765


Q ss_pred             h
Q 027412          160 D  160 (223)
Q Consensus       160 ~  160 (223)
                      .
T Consensus       172 ~  172 (176)
T 2r5s_A          172 Y  172 (176)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.49  E-value=1.8e-13  Score=99.00  Aligned_cols=219  Identities=14%  Similarity=0.039  Sum_probs=160.7

Q ss_pred             cccccCHHHHHHHHHHHhhC----CCC-cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC-CCc----HHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDR----GLE-PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-KPN----SITFTILIDA   71 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~   71 (223)
                      +...|++++|++.+++..+.    +.. ....++..+..++...|++++|...+++..+... .++    ..++..+...
T Consensus        53 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  132 (338)
T 3ro2_A           53 YFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNV  132 (338)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHH
Confidence            45679999999999987543    212 2256788899999999999999999998765321 111    3478889999


Q ss_pred             HHhcCC--------------------hhHHHHHHHHHHhc----CC-CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           72 FCKEGR--------------------MDDATMMFSKMLEK----GP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        72 ~~~~~~--------------------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      +...|+                    +++|...+++....    +. .....++..+...+...|++++|...+++..+.
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  212 (338)
T 3ro2_A          133 YHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLI  212 (338)
T ss_dssp             HHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            999999                    99999998877543    11 113457888899999999999999999988753


Q ss_pred             C-----CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-C----CHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          127 N-----ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL-P----DVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       127 ~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      .     ......++..+...+...|++++|...+++..+.... +    ...++..+...+...|++++|...+++..+.
T Consensus       213 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  292 (338)
T 3ro2_A          213 AKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  292 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            1     0111337888999999999999999999987743110 1    1567788999999999999999999988764


Q ss_pred             ----CCCCc-hhhHHHHhhhHhhcCCCcc
Q 027412          197 ----GIMPD-GLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       197 ----~~~p~-~~~~~~l~~~~~~~~~~~~  220 (223)
                          +-.+. ..++..+...+.+.|+.++
T Consensus       293 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~  321 (338)
T 3ro2_A          293 AQELKDRIGEGRACWSLGNAYTALGNHDQ  321 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHcCChHH
Confidence                11111 3356667777777766543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.49  E-value=3.5e-12  Score=96.91  Aligned_cols=187  Identities=12%  Similarity=0.033  Sum_probs=125.6

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHH---HhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----cCC
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGY---CSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EGR   77 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~   77 (223)
                      .+++++|++.|++..+..+. ++..+..+..++   ...++.++|++.+++..+..+. +..++..+...+..    .++
T Consensus       151 ~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~~~~~~~l~~~~~~~~~~~~~  228 (472)
T 4g1t_A          151 GNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-NQYLKVLLALKLHKMREEGEE  228 (472)
T ss_dssp             TTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-CHHHHHHHHHHHHHCC-----
T ss_pred             cccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-chHHHHHHHHHHHHHHhhhhH
Confidence            35789999999998887432 455665555543   3456777888888888776533 55666666555544    456


Q ss_pred             hhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc------------
Q 027412           78 MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR------------  145 (223)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------------  145 (223)
                      +++|.+.+++.....+. +..++..+...|...|++++|...++++.+.. |.+..++..+..+|...            
T Consensus       229 ~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~~~  306 (472)
T 4g1t_A          229 EGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLRENGM  306 (472)
T ss_dssp             -CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            78888888888887665 67788888888888899999988888888764 45556666665555322            


Q ss_pred             -------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          146 -------GLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       146 -------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                             +.++.|...+++..+..+ .+..++..+...+...|++++|...|++.++.
T Consensus       307 ~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~  363 (472)
T 4g1t_A          307 YGKRKLLELIGHAVAHLKKADEAND-NLFRVCSILASLHALADQYEEAEYYFQKEFSK  363 (472)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHCT-TTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHhhHHHHHHHHHHHhhcCC-chhhhhhhHHHHHHHhccHHHHHHHHHHHHhc
Confidence                   234556666666655443 24445666777777777777777777777764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.47  E-value=3e-12  Score=91.25  Aligned_cols=154  Identities=10%  Similarity=0.034  Sum_probs=129.2

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHH-HHHHHHHHHhcCChhH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSIT-FTILIDAFCKEGRMDD   80 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~   80 (223)
                      +.+.|++++|+..|++..+..+ .+...+..+..++...|++++|...++++....  |+... .......+...++.+.
T Consensus       127 ~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~~~l~~~~~~~~  203 (287)
T 3qou_A          127 LMQESNYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQIELLXQAADTP  203 (287)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHHHHHHHHHTSCH
T ss_pred             HHhCCCHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHHHHHHhhcccCc
Confidence            4578999999999999988753 367889999999999999999999999997764  34433 3333444667788899


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC--hhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN--IVSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      |...+++.....|. +...+..+...+...|++++|...|+++.+.. +.+  ...+..++..+...|+.++|...+++.
T Consensus       204 a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~-p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~a  281 (287)
T 3qou_A          204 EIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXD-LTAADGQTRXTFQEILAALGTGDALASXYRRQ  281 (287)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc-cccccchHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            99999999998876 88899999999999999999999999999864 333  678999999999999999999998876


Q ss_pred             Hh
Q 027412          159 LD  160 (223)
Q Consensus       159 ~~  160 (223)
                      ..
T Consensus       282 l~  283 (287)
T 3qou_A          282 LY  283 (287)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>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=99.47  E-value=2.3e-11  Score=82.63  Aligned_cols=131  Identities=13%  Similarity=0.018  Sum_probs=108.9

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHH
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (223)
                      ..+..+...+...|++++|...|++..    .|+..++..+..++...|++++|...+++.....+. +...|..+..++
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHH
Confidence            345667778888999999999998874    557888889999999999999999999999888765 778888899999


Q ss_pred             HhhCChhHHHHHHHHHHHCCCCCCh----------------hHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 027412          108 FKSQNMKSAFDVYEEMCENNISPNI----------------VSYSILIDGLCKRGLMEEALYAFHCALDNHLL  164 (223)
Q Consensus       108 ~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  164 (223)
                      ...|++++|...|+++.+.. +.+.                ..+..+..++...|++++|.+.|++..+..+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            99999999999999988753 3323                67888889999999999999999998877653

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.47  E-value=4.8e-12  Score=93.67  Aligned_cols=190  Identities=15%  Similarity=0.043  Sum_probs=146.2

Q ss_pred             cccccCHHHHHHHHHHHhhC----CC-Cc-CHHHHHHHHHHHHhcCchhHHHHHHHHHHhC----CCC-CcHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDR----GL-EP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLK-PNSITFTILID   70 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~----~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~   70 (223)
                      |...|+++.|+..+++..+.    +. .+ ...+++.+..+|...|++++|.+.+++..+.    +.. ....++..+..
T Consensus       151 y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~  230 (378)
T 3q15_A          151 YYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIAN  230 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45678999999999987653    11 11 2557889999999999999999999988653    111 12357888999


Q ss_pred             HHHhcCChhHHHHHHHHHHh-----cCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC----CCCChhHHHHHHHH
Q 027412           71 AFCKEGRMDDATMMFSKMLE-----KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN----ISPNIVSYSILIDG  141 (223)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~  141 (223)
                      +|...|++++|...+++...     ..+. ...++..+..++.+.|++++|...+++..+..    -+.....+..+...
T Consensus       231 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~l  309 (378)
T 3q15_A          231 SYDRSGDDQMAVEHFQKAAKVSREKVPDL-LPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAV  309 (378)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHCGGG-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHhhCChh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999999999999999887     4444 47788999999999999999999999988642    12223456666677


Q ss_pred             HHhcCC---HHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          142 LCKRGL---MEEALYAFHCALDNHLLP-DVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       142 ~~~~~~---~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      +...++   +.+|+..+++.   +..| ....+..+...|...|++++|...|++..+
T Consensus       310 y~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          310 YKETVDERKIHDLLSYFEKK---NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            777888   77777777652   2222 334667899999999999999999998875

>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=99.43  E-value=5.9e-11  Score=80.58  Aligned_cols=145  Identities=12%  Similarity=-0.077  Sum_probs=118.7

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      ..+..+...+...|++++|...|++..    .|+...|..+..++...|++++|...+++..... +.+...+..+..++
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            345667888899999999999998873    4578899999999999999999999999999875 66788999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCC---------------CHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHH
Q 027412          143 CKRGLMEEALYAFHCALDNHLLP---------------DVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLST  207 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~~~~~---------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  207 (223)
                      ...|++++|.+.|++..+..+..               ....+..+..++...|++++|...+++..+.........+..
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~  161 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDK  161 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHH
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcccccchHHH
Confidence            99999999999999998864321               237889999999999999999999999998533223333333


Q ss_pred             HhhhH
Q 027412          208 LADYN  212 (223)
Q Consensus       208 l~~~~  212 (223)
                      .+..+
T Consensus       162 a~~~~  166 (213)
T 1hh8_A          162 AMECV  166 (213)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            33333

>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=4.5e-11  Score=88.17  Aligned_cols=216  Identities=9%  Similarity=-0.040  Sum_probs=140.6

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCH----HHHHHHHHHHHhcCchhHHHHHHHHHHhCCC---CC--cHHHHHHHHHHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDI----ITYNTIICGYCSLNRLDEAVQLFEKLTCVQL---KP--NSITFTILIDAFC   73 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~   73 (223)
                      ...|++++|+..+++........+.    .++..+...+...|++++|...+++......   .+  ...++..+...+.
T Consensus        25 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~  104 (373)
T 1hz4_A           25 INDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILF  104 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHH
Confidence            4578899999999887765422222    2466677788888999999988888754311   11  1234566778888


Q ss_pred             hcCChhHHHHHHHHHHhcC----CC--c-cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCC----CChhHHHHHHHHH
Q 027412           74 KEGRMDDATMMFSKMLEKG----PK--A-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS----PNIVSYSILIDGL  142 (223)
Q Consensus        74 ~~~~~~~a~~~~~~~~~~~----~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~  142 (223)
                      ..|++++|...+++.....    ..  | ....+..+...+...|++++|...+++.......    ....++..+...+
T Consensus       105 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  184 (373)
T 1hz4_A          105 AQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCS  184 (373)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHH
Confidence            8899999998888876542    11  2 3445667788888899999999999888754211    1234677788888


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCC--CHHHHH----HHHHHHHhcCCcchHHHHHHHHHHCCCCCc---hhhHHHHhhhHh
Q 027412          143 CKRGLMEEALYAFHCALDNHLLP--DVVTYA----ILIRGYCKAGRPTEAMQLYDSMLRNGIMPD---GLLLSTLADYNL  213 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~----~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~---~~~~~~l~~~~~  213 (223)
                      ...|++++|...+++.......+  ......    ..+..+...|++++|...+++.......+.   ...+..+...+.
T Consensus       185 ~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~  264 (373)
T 1hz4_A          185 LARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQI  264 (373)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHH
Confidence            88999999999888876431111  111111    233447788999999988888765422111   123444555555


Q ss_pred             hcCCC
Q 027412          214 QSSGS  218 (223)
Q Consensus       214 ~~~~~  218 (223)
                      ..|+.
T Consensus       265 ~~g~~  269 (373)
T 1hz4_A          265 LLGEF  269 (373)
T ss_dssp             HTTCH
T ss_pred             HcCCH
Confidence            55543

>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=99.43  E-value=6e-12  Score=90.61  Aligned_cols=190  Identities=9%  Similarity=0.005  Sum_probs=143.8

Q ss_pred             cccCHHHHHHHHHHHhhC------CCCcC----HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC---CC--cHHHHHHH
Q 027412            4 KECHLDAALKLFGQLTDR------GLEPD----IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL---KP--NSITFTIL   68 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~------~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l   68 (223)
                      ..|++++|.+++++..+.      +..++    ...|......|...|++++|...|.+..+...   .+  -..+|+.+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~l   82 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQA   82 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            468899999999877542      11233    33677888889999999999999998765421   11  24578889


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCC---Cc--cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCC---C--ChhHHHHH
Q 027412           69 IDAFCKEGRMDDATMMFSKMLEKGP---KA--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS---P--NIVSYSIL  138 (223)
Q Consensus        69 ~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l  138 (223)
                      ..+|...|++++|+..|++......   .+  ...++..+..+|.. |++++|+..|++.......   +  ...++..+
T Consensus        83 g~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~l  161 (307)
T 2ifu_A           83 GMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKA  161 (307)
T ss_dssp             HHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence            9999999999999999998766421   11  24578888999988 9999999999988754211   1  14678889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 027412          139 IDGLCKRGLMEEALYAFHCALDN----HLLPD-VVTYAILIRGYCKAGRPTEAMQLYDSML  194 (223)
Q Consensus       139 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~  194 (223)
                      ...|...|++++|+..|++..+.    +..++ ...+..+..++...|++++|...|++..
T Consensus       162 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          162 SRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            99999999999999999988753    21111 2366777788888899999999999988

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.42  E-value=2.3e-11  Score=75.76  Aligned_cols=97  Identities=19%  Similarity=0.161  Sum_probs=50.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLC  143 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  143 (223)
                      .+...+..|.+.|++++|+..|++.++.++. +..+|..+..++.+.|++++|+..+++.++.+ +.+...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            3444555555555555555555555554443 44555555555555555555555555555443 334445555555555


Q ss_pred             hcCCHHHHHHHHHHHHhCC
Q 027412          144 KRGLMEEALYAFHCALDNH  162 (223)
Q Consensus       144 ~~~~~~~a~~~~~~~~~~~  162 (223)
                      ..|++++|.+.|++.++..
T Consensus        93 ~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HCCCHHHHHHHHHHHHHHC
Confidence            5555555555555555443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.41  E-value=8.1e-12  Score=77.85  Aligned_cols=112  Identities=16%  Similarity=0.109  Sum_probs=98.3

Q ss_pred             HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 027412           97 VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRG  176 (223)
Q Consensus        97 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  176 (223)
                      ...+......|.+.|++++|+..|++.++.+ |.+..+|..+..++.+.|++++|+..+++.++.++ .+...|..+..+
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            4678889999999999999999999999875 77889999999999999999999999999998776 478899999999


Q ss_pred             HHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhH
Q 027412          177 YCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN  212 (223)
Q Consensus       177 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  212 (223)
                      +...|++++|.+.|++.++  +.|+......-+.-|
T Consensus        91 ~~~~~~~~~A~~~~~~al~--l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQ--VDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCcCCHHHHHHHHHh
Confidence            9999999999999999998  578766554444433

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.39  E-value=3.5e-11  Score=88.76  Aligned_cols=217  Identities=14%  Similarity=0.021  Sum_probs=151.6

Q ss_pred             cccccCHHHHHHHHHHHhhCCC-CcC----HHHHHHHHHHHHhcCchhHHHHHHHHHHhC----CCC--C-cHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGL-EPD----IITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLK--P-NSITFTILI   69 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~   69 (223)
                      +...|++++|+..+++...... .++    ..++..+...+...|++++|...+++..+.    +..  | ....+..+.
T Consensus        63 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la  142 (373)
T 1hz4_A           63 LHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRA  142 (373)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHH
Confidence            3467999999999998765311 112    234677888899999999999999987653    221  2 345667788


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCc----cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC--hhHHH----HHH
Q 027412           70 DAFCKEGRMDDATMMFSKMLEKGPKA----NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN--IVSYS----ILI  139 (223)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~----~l~  139 (223)
                      ..+...|++++|...+++........    ...++..+...+...|++++|...+++.....-.++  .....    ..+
T Consensus       143 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~  222 (373)
T 1hz4_A          143 QLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRV  222 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHH
Confidence            89999999999999999987754321    235677888999999999999999998875411111  11111    233


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCCcchHHHHHHHHHHC----CCCCchh-hHHHHhhh
Q 027412          140 DGLCKRGLMEEALYAFHCALDNHLLP---DVVTYAILIRGYCKAGRPTEAMQLYDSMLRN----GIMPDGL-LLSTLADY  211 (223)
Q Consensus       140 ~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~p~~~-~~~~l~~~  211 (223)
                      ..+...|++++|...+++.......+   ....+..+...+...|++++|...+++....    |..++.. .+..+..+
T Consensus       223 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~  302 (373)
T 1hz4_A          223 IYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQL  302 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHH
Confidence            45779999999999999887644321   2335677888999999999999999988653    2222222 44444555


Q ss_pred             HhhcCCC
Q 027412          212 NLQSSGS  218 (223)
Q Consensus       212 ~~~~~~~  218 (223)
                      +...|+.
T Consensus       303 ~~~~g~~  309 (373)
T 1hz4_A          303 YWQAGRK  309 (373)
T ss_dssp             HHHHTCH
T ss_pred             HHHhCCH
Confidence            5555543

>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=99.39  E-value=5.1e-11  Score=77.49  Aligned_cols=128  Identities=14%  Similarity=0.112  Sum_probs=73.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLC  143 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  143 (223)
                      .+..+...+...|++++|...|++..+..+. +..++..+..++...|++++|...+++..+.. +.+...+..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            4455555566666666666666666655443 45556666666666666666666666666543 444556666666666


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHH--HHHHHHhcCCcchHHHHHHHHH
Q 027412          144 KRGLMEEALYAFHCALDNHLLPDVVTYAI--LIRGYCKAGRPTEAMQLYDSML  194 (223)
Q Consensus       144 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~a~~~~~~~~  194 (223)
                      ..|++++|...++++.+..+ .+...+..  .+..+...|++++|...+.+..
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            66666666666666655443 23333322  2233555566666666665543

>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=99.38  E-value=1.4e-10  Score=82.79  Aligned_cols=164  Identities=13%  Similarity=0.087  Sum_probs=125.9

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCC-CCcH----HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC-cc----HHHHH
Q 027412           32 TIICGYCSLNRLDEAVQLFEKLTCVQL-KPNS----ITFTILIDAFCKEGRMDDATMMFSKMLEKGPK-AN----VVTYS  101 (223)
Q Consensus        32 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~  101 (223)
                      ..+..+...|++++|..++++..+... .|+.    ..+..+...+...+++++|...+++....... ++    ..+++
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            346778889999999999999886532 2232    23445777777888999999999999874322 12    33689


Q ss_pred             HHHHHHHhhCChhHHHHHHHHHHHC-----CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHH
Q 027412          102 CLIDGYFKSQNMKSAFDVYEEMCEN-----NISP-NIVSYSILIDGLCKRGLMEEALYAFHCALDN----HLLP-DVVTY  170 (223)
Q Consensus       102 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~  170 (223)
                      .+..+|...|++++|...++++.+.     +..+ ...++..+..+|.+.|++++|...+++..+.    +..+ -..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            9999999999999999999998841     1112 2347889999999999999999999987742    2222 26788


Q ss_pred             HHHHHHHHhcCC-cchHHHHHHHHHH
Q 027412          171 AILIRGYCKAGR-PTEAMQLYDSMLR  195 (223)
Q Consensus       171 ~~l~~~~~~~g~-~~~a~~~~~~~~~  195 (223)
                      ..+..++...|+ +++|...+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            999999999995 5999999988875

>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=99.38  E-value=9.9e-11  Score=76.09  Aligned_cols=130  Identities=12%  Similarity=0.091  Sum_probs=110.0

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (223)
                      ...+..+...+...|++++|...|++..+... .+..++..+..++...|++++|...+++..+..+. +...+..+..+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHH
Confidence            45678888899999999999999999987653 36888999999999999999999999999998765 78889999999


Q ss_pred             HHhhCChhHHHHHHHHHHHCCCCCChhHHHH--HHHHHHhcCCHHHHHHHHHHHH
Q 027412          107 YFKSQNMKSAFDVYEEMCENNISPNIVSYSI--LIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      +...|++++|...++++.... +.+...+..  .+..+...|++++|.+.+....
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            999999999999999999864 455556644  4444778899999999987654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.37  E-value=3.6e-12  Score=81.88  Aligned_cols=100  Identities=14%  Similarity=0.054  Sum_probs=76.4

Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHH
Q 027412           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILID  140 (223)
Q Consensus        61 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  140 (223)
                      +...+..+...+.+.|++++|+..|++....+|. +...|..+..++...|++++|...|+++.... |.++..+..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            3456667777777888888888888888777665 77777778888888888888888888887764 556777777888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCC
Q 027412          141 GLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus       141 ~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      +|...|++++|...|++..+..
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            8888888888888888777654

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=99.37  E-value=2.2e-11  Score=80.36  Aligned_cols=123  Identities=12%  Similarity=0.186  Sum_probs=79.0

Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHH-HHhhCCh--h
Q 027412           38 CSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG-YFKSQNM--K  114 (223)
Q Consensus        38 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~  114 (223)
                      ...|++++|...+++..+..+ .+...+..+..+|...|++++|...|++..+..+. +...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcchH
Confidence            445667777777777665542 35566777777777777777777777777666554 55666666666 6666776  7


Q ss_pred             HHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412          115 SAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus       115 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      +|...++++...+ +.+...+..+..++...|++++|...++++.+..+
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  146 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLNS  146 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCC
Confidence            7777777776654 44566666777777777777777777777666543

>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=99.37  E-value=1.6e-10  Score=78.68  Aligned_cols=153  Identities=12%  Similarity=-0.030  Sum_probs=128.7

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC----chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh---
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN----RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK---   74 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---   74 (223)
                      |...+++++|+..|++..+.|   ++..+..|..+|.. +    ++++|..+|++..+.+   ++..+..|...|..   
T Consensus        28 ~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g~g  100 (212)
T 3rjv_A           28 WVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLARVLVNRQA  100 (212)
T ss_dssp             HHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHTCGGG
T ss_pred             HhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCC
Confidence            345789999999999998875   66788888888888 7    8999999999998764   66778889999987   


Q ss_pred             -cCChhHHHHHHHHHHhcCCC-ccHHHHHHHHHHHHh----hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc-C-
Q 027412           75 -EGRMDDATMMFSKMLEKGPK-ANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR-G-  146 (223)
Q Consensus        75 -~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-  146 (223)
                       .+++++|+..|++..+.++. .++..+..|...|..    .+++++|..+|++..+.  +.+...+..+...|... | 
T Consensus       101 ~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~Lg~~y~~g~gg  178 (212)
T 3rjv_A          101 GATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYWAGMMFQQGEKG  178 (212)
T ss_dssp             SSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHHHHHHHHHCBTT
T ss_pred             CccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHcCCCC
Confidence             88999999999999987653 136788889999988    88999999999999886  34566788888888764 3 


Q ss_pred             ----CHHHHHHHHHHHHhCCC
Q 027412          147 ----LMEEALYAFHCALDNHL  163 (223)
Q Consensus       147 ----~~~~a~~~~~~~~~~~~  163 (223)
                          ++++|..+|++..+.|.
T Consensus       179 ~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          179 FIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             TBCCCHHHHHHHHHHHHHHTC
T ss_pred             CCCCCHHHHHHHHHHHHHcCC
Confidence                89999999999988764

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.36  E-value=1.3e-10  Score=71.60  Aligned_cols=97  Identities=26%  Similarity=0.382  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      ..+..+...+...|++++|...++++....+. +..++..+..++...|++++|...++++.... +.+..++..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            34444444555555555555555555444332 34444445555555555555555555544432 33344444555555


Q ss_pred             HhcCCHHHHHHHHHHHHhC
Q 027412          143 CKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~  161 (223)
                      ...|++++|...++++.+.
T Consensus        88 ~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHh
Confidence            5555555555555554443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.36  E-value=2e-12  Score=83.13  Aligned_cols=104  Identities=10%  Similarity=0.037  Sum_probs=94.3

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIR  175 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  175 (223)
                      +...+..+...+.+.|++++|...|+++...+ |.+...|..+..++...|++++|+..|++..+..+ .++..|..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P-~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK-NDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS-SCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC-CCcHHHHHHHH
Confidence            56788889999999999999999999999876 77889999999999999999999999999998776 46788999999


Q ss_pred             HHHhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          176 GYCKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       176 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                      ++...|++++|...|++.++.  .|+..
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l--~~~~~  138 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQH--SNDEK  138 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CCCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCHH
Confidence            999999999999999999984  56654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.36  E-value=1.3e-10  Score=72.19  Aligned_cols=119  Identities=17%  Similarity=0.082  Sum_probs=64.6

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 027412           62 SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDG  141 (223)
Q Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  141 (223)
                      ...+..+...+...|++++|...+++.....+. +...+..+..++...|++++|...+++..... +.+...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELNPA-NAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            344455555555555566666555555554433 44555555555555666666666665555542 3345555555555


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCc
Q 027412          142 LCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRP  183 (223)
Q Consensus       142 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  183 (223)
                      +...|++++|...+++..+..+ .+...+..+..++...|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDP-DNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHhcC
Confidence            6666666666666665555433 2444555555555555443

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=99.36  E-value=2.8e-11  Score=79.85  Aligned_cols=123  Identities=11%  Similarity=0.176  Sum_probs=104.1

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHH-HHhcCCh--
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDA-FCKEGRM--   78 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--   78 (223)
                      +...|++++|+..++...+.. +.+...+..+..++...|++++|...|++..+..+ .+...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG-ENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCCcch
Confidence            457789999999999988775 34778999999999999999999999999987653 367788888888 7889998  


Q ss_pred             hHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC
Q 027412           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (223)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  127 (223)
                      ++|...+++..+.++. +...+..+..++...|++++|...++++.+..
T Consensus        98 ~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           98 AQTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            9999999999998776 78889999999999999999999999999864

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.35  E-value=5.7e-11  Score=79.91  Aligned_cols=158  Identities=16%  Similarity=0.015  Sum_probs=99.7

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhC----CCC-CcHHHHHHHHHHHHhcC
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLK-PNSITFTILIDAFCKEG   76 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~   76 (223)
                      +...|++++|.+.++.+... ......++..+...+...|++++|...+++..+.    +.. ....++..+...+...|
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            45678888888855554432 2234667788888888888888888888877552    111 23456777777888888


Q ss_pred             ChhHHHHHHHHHHhc---CC-C--ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC----CCC-CChhHHHHHHHHHHhc
Q 027412           77 RMDDATMMFSKMLEK---GP-K--ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN----NIS-PNIVSYSILIDGLCKR  145 (223)
Q Consensus        77 ~~~~a~~~~~~~~~~---~~-~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~  145 (223)
                      ++++|...+++..+.   .. .  .....+..+...+...|++++|...+++....    +.+ ....++..+...+...
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  160 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQE  160 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHC
Confidence            888888888776654   11 1  12345667777788888888888887776532    100 0122356667777777


Q ss_pred             CCHHHHHHHHHHHHh
Q 027412          146 GLMEEALYAFHCALD  160 (223)
Q Consensus       146 ~~~~~a~~~~~~~~~  160 (223)
                      |++++|.+.+++..+
T Consensus       161 g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          161 KNLLEAQQHWLRARD  175 (203)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            777777777766553

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.35  E-value=7.9e-12  Score=80.19  Aligned_cols=110  Identities=13%  Similarity=-0.010  Sum_probs=70.6

Q ss_pred             HHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC
Q 027412           49 LFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (223)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  128 (223)
                      .++++.... +.+...+..+...+.+.|++++|+..|++....++. +...|..+..++...|++++|...|+++...+ 
T Consensus         9 ~~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-   85 (148)
T 2vgx_A            9 TIAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-   85 (148)
T ss_dssp             SHHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             hHHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-
Confidence            344444332 114445566666677777777777777777666554 66666667777777777777777777776654 


Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412          129 SPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       129 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      +.+...+..+..++...|++++|...|++..+.
T Consensus        86 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           86 IXEPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            445666666777777777777777777766654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.34  E-value=1.1e-10  Score=72.94  Aligned_cols=96  Identities=19%  Similarity=0.204  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      ..+..+...+...|++++|...+++..+..+. +...+..+..++...|++++|...++++.+.. +.+...+..+..++
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~   94 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHH
Confidence            33444444444444444444444444433322 33344444444444444444444444444332 22333444444444


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 027412          143 CKRGLMEEALYAFHCALD  160 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~  160 (223)
                      ...|++++|.+.+++..+
T Consensus        95 ~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHH
Confidence            444444444444444433

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.34  E-value=8.3e-10  Score=78.83  Aligned_cols=166  Identities=11%  Similarity=0.067  Sum_probs=126.5

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcH-----HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC---cc--HHH
Q 027412           30 YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS-----ITFTILIDAFCKEGRMDDATMMFSKMLEKGPK---AN--VVT   99 (223)
Q Consensus        30 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~--~~~   99 (223)
                      +...+..+...|++++|.+.+++..+.......     ..+..+...+...|++++|...+++.......   +.  ..+
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHH
Confidence            445667788999999999999988766433211     23445667778889999999999998764222   11  458


Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHHHC--CCCC----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCC-CHH
Q 027412          100 YSCLIDGYFKSQNMKSAFDVYEEMCEN--NISP----NIVSYSILIDGLCKRGLMEEALYAFHCALDNH----LLP-DVV  168 (223)
Q Consensus       100 ~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~  168 (223)
                      ++.+...|...|++++|...++++.+.  ..+.    ...++..+..+|...|++++|...+++..+..    ... -..
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~  237 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            899999999999999999999998732  1111    12588999999999999999999999887431    111 267


Q ss_pred             HHHHHHHHHHhcCCcchH-HHHHHHHHH
Q 027412          169 TYAILIRGYCKAGRPTEA-MQLYDSMLR  195 (223)
Q Consensus       169 ~~~~l~~~~~~~g~~~~a-~~~~~~~~~  195 (223)
                      +|..+..++...|++++| ...+++...
T Consensus       238 ~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          238 LYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            889999999999999999 777877653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.34  E-value=1.5e-10  Score=72.32  Aligned_cols=120  Identities=8%  Similarity=0.005  Sum_probs=103.5

Q ss_pred             CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHH
Q 027412           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (223)
Q Consensus        24 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (223)
                      +.+...+..+...+...|++++|...+++..+... .+..++..+..++...|++++|...+++..+..+. +...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHH
Confidence            34577899999999999999999999999987753 37888999999999999999999999999998765 78889999


Q ss_pred             HHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC
Q 027412          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG  146 (223)
Q Consensus       104 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  146 (223)
                      ..++...|++++|...+++..+.. +.+...+..+..++...|
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            999999999999999999998864 455667777777776655

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.34  E-value=1.4e-10  Score=81.33  Aligned_cols=199  Identities=11%  Similarity=-0.034  Sum_probs=150.8

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHH-------HHHHHhcCchhHHHHHHHHHHhC------------CCC----C
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTI-------ICGYCSLNRLDEAVQLFEKLTCV------------QLK----P   60 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~------------~~~----~   60 (223)
                      ..++.+.|.+.|.++.+..+. ....|..+       ..++.+.++..+++..+....+.            |.-    .
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            468899999999999988533 57888888       57777777778877777776552            100    0


Q ss_pred             ----cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC--hhH
Q 027412           61 ----NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN--IVS  134 (223)
Q Consensus        61 ----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~  134 (223)
                          -....-.+...+...|++++|.++|+.+...++. +. ....+...+.+.+++++|+..|+...... .|.  ...
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~-~~-~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a  173 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSE-HL-VAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAA  173 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCH-HH-HHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCc-hH-HHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHH
Confidence                0233445677888899999999999998876654 33 66667889999999999999998665532 121  347


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHH
Q 027412          135 YSILIDGLCKRGLMEEALYAFHCALDNHLLP--DVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTL  208 (223)
Q Consensus       135 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  208 (223)
                      +..+..++...|++++|+..|++.......|  ..........++.+.|+.++|...|+++...  .|+......|
T Consensus       174 ~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~aL  247 (282)
T 4f3v_A          174 GVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAAAL  247 (282)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHH
Confidence            8889999999999999999999997543214  4457778889999999999999999999984  6664444444

>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=99.33  E-value=3e-10  Score=94.22  Aligned_cols=143  Identities=12%  Similarity=0.131  Sum_probs=82.2

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (223)
                      +.+|..+..++.+.|++++|++.|.+.      .|...|..++.++.+.|++++|.+++...++....|..  .+.++.+
T Consensus      1105 p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~I--dt~Lafa 1176 (1630)
T 1xi4_A         1105 PAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYV--ETELIFA 1176 (1630)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccc--cHHHHHH
Confidence            455666666666666666666666543      24555556666666666666666666655544322222  2235555


Q ss_pred             HHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchH
Q 027412          107 YFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEA  186 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  186 (223)
                      |++.+++++...+.    .   .++...+..+...|...|++++|..+|...         ..|..++.++.+.|++++|
T Consensus      1177 YAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~A 1240 (1630)
T 1xi4_A         1177 LAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAA 1240 (1630)
T ss_pred             HHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHH
Confidence            55555555322221    1   234445555666666666777776666553         3566667777777777777


Q ss_pred             HHHHHHH
Q 027412          187 MQLYDSM  193 (223)
Q Consensus       187 ~~~~~~~  193 (223)
                      .+.+++.
T Consensus      1241 IEaarKA 1247 (1630)
T 1xi4_A         1241 VDGARKA 1247 (1630)
T ss_pred             HHHHHHh
Confidence            7666655

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.33  E-value=2.5e-10  Score=70.34  Aligned_cols=116  Identities=22%  Similarity=0.328  Sum_probs=99.4

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (223)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+..++...|++++|...++++....+. +..++..+..+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHH
Confidence            5678889999999999999999999998765 336788899999999999999999999999988765 77888999999


Q ss_pred             HHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc
Q 027412          107 YFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR  145 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  145 (223)
                      +...|++++|...++++.+.. +.+...+..+...+...
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  124 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQKQ  124 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhc
Confidence            999999999999999998864 55666777666666544

>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=99.33  E-value=1.4e-10  Score=84.56  Aligned_cols=130  Identities=11%  Similarity=-0.037  Sum_probs=77.8

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCc--------------HHHHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN--------------SITFTILIDAFCKEGRMDDATMMFSKMLEKG   92 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   92 (223)
                      ...+..+...+.+.|++++|...|++..+......              ..+|..+..+|.+.|++++|+..+++.++..
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            44566666666666666666666666665532221              3556666666666666666666666666665


Q ss_pred             CCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHH-HHHHHHH
Q 027412           93 PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEA-LYAFHCA  158 (223)
Q Consensus        93 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~  158 (223)
                      +. +...|..+..+|...|++++|...|+++.+.. +.+..++..+..++.+.|+++++ ...++.|
T Consensus       227 p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          227 SN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             TT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            54 55566666666666666666666666666553 44555666666666666666655 3344444

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.32  E-value=9.4e-10  Score=78.64  Aligned_cols=185  Identities=10%  Similarity=0.017  Sum_probs=88.8

Q ss_pred             CHHHHHHHHHHHhhCCCCcCHHHHHHHHHHH----Hhc---CchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChh
Q 027412            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGY----CSL---NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD   79 (223)
Q Consensus         7 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   79 (223)
                      +++++++.++.+....++ +..+|+.-..++    ...   +++++++.+++++.+..++ +..+|+.-.-++.+.|.++
T Consensus        84 ~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~  161 (306)
T 3dra_A           84 NLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHN  161 (306)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTT
T ss_pred             cHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccC
Confidence            455555555555444322 233333322222    222   4455555555555544322 4444544444444445544


Q ss_pred             --HHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCC------hhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHH-
Q 027412           80 --DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN------MKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEE-  150 (223)
Q Consensus        80 --~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-  150 (223)
                        ++++.++++.+.++. |...|+.........+.      ++++++.+++++..+ +-|...|+.+...+.+.|+... 
T Consensus       162 ~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~  239 (306)
T 3dra_A          162 DAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQ  239 (306)
T ss_dssp             CHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGG
T ss_pred             hHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHH
Confidence              555555555555444 45555544444444444      455555555555443 4445555555555555444222 


Q ss_pred             HHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          151 ALYAFHCALDNH--LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       151 a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      +..+..++.+.+  -..++..+..++.++.+.|+.++|.++++.+.+
T Consensus       240 ~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          240 LEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             GHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            333333333222  013455566666666666666666666666654

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.32  E-value=3.6e-11  Score=77.07  Aligned_cols=110  Identities=12%  Similarity=-0.020  Sum_probs=69.9

Q ss_pred             HHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCC
Q 027412           14 LFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGP   93 (223)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   93 (223)
                      .|+++.... +.+...+..+...+...|++++|...|++.....+ .+...|..+..++...|++++|+..|++....++
T Consensus         9 ~~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p   86 (148)
T 2vgx_A            9 TIAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDH-YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI   86 (148)
T ss_dssp             SHHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             hHHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            344444432 12344566666667777777777777777665542 2566666667777777777777777777766655


Q ss_pred             CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           94 KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        94 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      . +...+..+..++...|++++|...|++..+.
T Consensus        87 ~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           87 X-EPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             T-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             C-CchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4 5566666777777777777777777766653

>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=99.32  E-value=1.6e-10  Score=82.59  Aligned_cols=158  Identities=11%  Similarity=0.027  Sum_probs=121.2

Q ss_pred             ccccCHHHHHHHHHHHhhCCC-CcCH----HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC-Cc----HHHHHHHHHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGL-EPDI----ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK-PN----SITFTILIDAF   72 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~   72 (223)
                      ...|++++|..++++...... .|+.    ..+..+...+...+++++|+..+++..+.... ++    ..+++.++.+|
T Consensus        86 ~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y  165 (293)
T 3u3w_A           86 CKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIY  165 (293)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHH
Confidence            467999999999999887532 2222    23445777778888999999999999874322 22    34789999999


Q ss_pred             HhcCChhHHHHHHHHHHhc-----CCC-ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC----CCCC-ChhHHHHHHHH
Q 027412           73 CKEGRMDDATMMFSKMLEK-----GPK-ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN----NISP-NIVSYSILIDG  141 (223)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~-----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~  141 (223)
                      ...|++++|+..+++..+.     +.. ....++..+..+|.+.|++++|...+++..+.    +..+ -..++..+..+
T Consensus       166 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~  245 (293)
T 3u3w_A          166 AENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGEC  245 (293)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHH
Confidence            9999999999999998742     111 12347888999999999999999999988753    2112 25688999999


Q ss_pred             HHhcCC-HHHHHHHHHHHHh
Q 027412          142 LCKRGL-MEEALYAFHCALD  160 (223)
Q Consensus       142 ~~~~~~-~~~a~~~~~~~~~  160 (223)
                      +.+.|+ +++|.+.+++...
T Consensus       246 ~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          246 LRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHhCCcHHHHHHHHHHHHH
Confidence            999994 6999999988763

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.31  E-value=1.3e-10  Score=72.27  Aligned_cols=120  Identities=16%  Similarity=0.074  Sum_probs=104.5

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (223)
                      +...+..+...+...|++++|...+++...... .+...+..+..++...|++++|...+++.....+. +...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNP-ANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPA-YSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCcc-CHHHHHHHHH
Confidence            466788889999999999999999999987653 36788899999999999999999999999988765 6888999999


Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCH
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLM  148 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  148 (223)
                      ++...|++++|...+++..+.. +.+...+..+..++...|++
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            9999999999999999998874 55778888888888887764

>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=99.31  E-value=1.4e-10  Score=84.45  Aligned_cols=152  Identities=17%  Similarity=0.098  Sum_probs=125.7

Q ss_pred             cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCcc--------------HHHHHHHHH
Q 027412           40 LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN--------------VVTYSCLID  105 (223)
Q Consensus        40 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~  105 (223)
                      .+++++|...++...+.. +.+...+..+...+.+.|++++|+..|++..+..+...              ...|..+..
T Consensus       126 L~~~~~A~~~~~~a~~~~-p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~  204 (336)
T 1p5q_A          126 LKSFEKAKESWEMNSEEK-LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAM  204 (336)
T ss_dssp             EEEEECCCCGGGCCHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHH
T ss_pred             EeecccccchhcCCHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHH
Confidence            344556665555443321 11466888999999999999999999999999876632              588999999


Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcch
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTE  185 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  185 (223)
                      ++.+.|++++|+..++++.+.. +.+...+..+..+|...|++++|...|+++++..+ .+...+..+..++...|++++
T Consensus       205 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~  282 (336)
T 1p5q_A          205 CHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRIRRQLA  282 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999875 67889999999999999999999999999998766 477889999999999999998


Q ss_pred             H-HHHHHHHH
Q 027412          186 A-MQLYDSML  194 (223)
Q Consensus       186 a-~~~~~~~~  194 (223)
                      + ...++.|.
T Consensus       283 a~~~~~~~~~  292 (336)
T 1p5q_A          283 REKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8 45666665

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.31  E-value=1.1e-10  Score=78.41  Aligned_cols=158  Identities=13%  Similarity=-0.059  Sum_probs=119.1

Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc----C-CCccHHHHHHHHHHHHhhCC
Q 027412           38 CSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK----G-PKANVVTYSCLIDGYFKSQN  112 (223)
Q Consensus        38 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~  112 (223)
                      ...|++++|.+.++.+.. .......++..+...+...|++++|...+++....    + ......++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            457899999996655543 22346778999999999999999999999988762    1 12245678889999999999


Q ss_pred             hhHHHHHHHHHHHC----CCC--CChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCC--HHHHHHHHHHHHhcC
Q 027412          113 MKSAFDVYEEMCEN----NIS--PNIVSYSILIDGLCKRGLMEEALYAFHCALDN---HLLPD--VVTYAILIRGYCKAG  181 (223)
Q Consensus       113 ~~~a~~~~~~~~~~----~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~--~~~~~~l~~~~~~~g  181 (223)
                      +++|...+++....    +-.  .....+..+...+...|++++|...+++..+.   ...+.  ..++..+..++...|
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            99999999988753    211  12456788899999999999999999987742   11111  334678889999999


Q ss_pred             CcchHHHHHHHHHHC
Q 027412          182 RPTEAMQLYDSMLRN  196 (223)
Q Consensus       182 ~~~~a~~~~~~~~~~  196 (223)
                      ++++|...+++..+.
T Consensus       162 ~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          162 NLLEAQQHWLRARDI  176 (203)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999988754

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.30  E-value=7.4e-10  Score=79.08  Aligned_cols=158  Identities=11%  Similarity=-0.004  Sum_probs=120.4

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcC-----HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC---CCc--HHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPD-----IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL---KPN--SITFTILIDA   71 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~~~l~~~   71 (223)
                      +...|++++|++.++...+.....+     ...+..+...+...|++++|...+++..+...   .+.  ..+++.+...
T Consensus        85 ~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~  164 (293)
T 2qfc_A           85 LCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANI  164 (293)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHH
Confidence            3567899999999998876532211     12344566777888999999999999875431   112  4588999999


Q ss_pred             HHhcCChhHHHHHHHHHHh---cCCC-c--cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC----CCC-ChhHHHHHHH
Q 027412           72 FCKEGRMDDATMMFSKMLE---KGPK-A--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN----ISP-NIVSYSILID  140 (223)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~---~~~~-~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~  140 (223)
                      |...|++++|...+++...   ..+. +  ...++..+..+|...|++++|...+++..+..    ... -..++..+..
T Consensus       165 y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~  244 (293)
T 2qfc_A          165 YAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGE  244 (293)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            9999999999999999873   3222 1  22588899999999999999999999987532    111 1568899999


Q ss_pred             HHHhcCCHHHH-HHHHHHHH
Q 027412          141 GLCKRGLMEEA-LYAFHCAL  159 (223)
Q Consensus       141 ~~~~~~~~~~a-~~~~~~~~  159 (223)
                      +|.+.|++++| ...+++..
T Consensus       245 ~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          245 CLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHcCCcHHHHHHHHHHHH
Confidence            99999999999 77777665

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.30  E-value=1.3e-09  Score=77.50  Aligned_cols=167  Identities=11%  Similarity=0.088  Sum_probs=121.8

Q ss_pred             HHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCC-CccHHHHHHHHHHHHhhCChhHHHHHHHHHH
Q 027412           46 AVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (223)
Q Consensus        46 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  124 (223)
                      ++..+++..+.+ .++..++..+..++...|++++|++++.+.+..++ .-+...+...+..+.+.|+.+.|.+.+++|.
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            455566665544 44566667899999999999999999999877765 2377888889999999999999999999998


Q ss_pred             HCCCCC-----ChhHHHHHHHHH--HhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          125 ENNISP-----NIVSYSILIDGL--CKRG--LMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       125 ~~~~~~-----~~~~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      +.  .|     +..+...++.++  ...|  ++.+|..+|+++.+..  |+..+-..++.++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            75  56     356666676663  3334  8999999999987654  4433334444489999999999999997765


Q ss_pred             C-----CC---CCc-hhhHHHHhhhHhhcCC
Q 027412          196 N-----GI---MPD-GLLLSTLADYNLQSSG  217 (223)
Q Consensus       196 ~-----~~---~p~-~~~~~~l~~~~~~~~~  217 (223)
                      .     ..   .|+ +.++..++......|+
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk  270 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL  270 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh
Confidence            2     11   244 4455455555554443

>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=99.29  E-value=5.1e-10  Score=92.89  Aligned_cols=188  Identities=15%  Similarity=0.144  Sum_probs=130.3

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|++.|.+.      .+...|..++.++.+.|++++|.+.+....+..  +++...+.++.+|++.+++++.
T Consensus      1115 ql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleel 1186 (1630)
T 1xi4_A         1115 QLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAEL 1186 (1630)
T ss_pred             HHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHH
Confidence            45678999999999663      377788999999999999999999999877654  3333334588888888887754


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      ..++    .   .++...|..+...|...|++++|..+|..+         ..|..++.++.+.|++++|.+.+++..+.
T Consensus      1187 e~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~n~ 1250 (1630)
T 1xi4_A         1187 EEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKANST 1250 (1630)
T ss_pred             HHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhCCH
Confidence            4332    1   234556667888888888888888888774         36777888888888888888777655321


Q ss_pred             C------------------------CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhh
Q 027412          162 H------------------------LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQ  214 (223)
Q Consensus       162 ~------------------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  214 (223)
                      .                        +..++..+..++..|...|.+++|+.+++..+... .-....|.-+.-.+.+
T Consensus      1251 ~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaK 1326 (1630)
T 1xi4_A         1251 RTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK 1326 (1630)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHh
Confidence            1                        11244456677777888888888888887776432 2223344444444443

>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=99.29  E-value=6.5e-11  Score=85.18  Aligned_cols=184  Identities=11%  Similarity=0.010  Sum_probs=132.7

Q ss_pred             cccccCHHHHHHHHHHHhhC----CCCc-CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCC---CCC--cHHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDR----GLEP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ---LKP--NSITFTILIDA   71 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~--~~~~~~~l~~~   71 (223)
                      |...|++++|+..|.+..+.    +-.+ -..+|+.+..+|...|++++|+..|++..+..   -.+  ...++..+..+
T Consensus        46 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~  125 (307)
T 2ifu_A           46 FKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKL  125 (307)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34568888888888876553    1111 14578899999999999999999999875431   122  24578889999


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCc-----cHHHHHHHHHHHHhhCChhHHHHHHHHHHHC----CCCCC-hhHHHHHHHH
Q 027412           72 FCKEGRMDDATMMFSKMLEKGPKA-----NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN----NISPN-IVSYSILIDG  141 (223)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~  141 (223)
                      |.. |++++|+..|++.....+..     ...++..+..++...|++++|+..|++....    +..+. ...+..++.+
T Consensus       126 ~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~  204 (307)
T 2ifu_A          126 MEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLV  204 (307)
T ss_dssp             HTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHH
Confidence            988 99999999999887653211     1467888999999999999999999998863    11111 2366777788


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCC--C--HHHHHHHHHHHHhcCCcchHHH
Q 027412          142 LCKRGLMEEALYAFHCALDNHLLP--D--VVTYAILIRGYCKAGRPTEAMQ  188 (223)
Q Consensus       142 ~~~~~~~~~a~~~~~~~~~~~~~~--~--~~~~~~l~~~~~~~g~~~~a~~  188 (223)
                      +...|++++|...|++.. ..+..  .  ......++.++ ..|+.+.+..
T Consensus       205 ~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          205 QLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            888999999999999988 54321  1  12344555555 5677766655

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.29  E-value=2e-09  Score=76.97  Aligned_cols=206  Identities=13%  Similarity=-0.001  Sum_probs=163.0

Q ss_pred             HHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC--chhHHHHHHHHHHhCCCCCcHHHHHHHHHHH----Hhc---CCh
Q 027412            8 LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN--RLDEAVQLFEKLTCVQLKPNSITFTILIDAF----CKE---GRM   78 (223)
Q Consensus         8 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~   78 (223)
                      .++|+++++.++...+. +..+|+.--.++...+  ++++++.+++.+...+++ +..+|+.-...+    ...   +++
T Consensus        49 s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           49 SERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCH
Confidence            36899999998887533 5667888888888888  999999999999887654 556666555555    445   789


Q ss_pred             hHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChh--HHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC------HHH
Q 027412           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK--SAFDVYEEMCENNISPNIVSYSILIDGLCKRGL------MEE  150 (223)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~  150 (223)
                      ++++.+++++.+.+++ +..+|+.-..++.+.|.++  +++++++++.+.+ +-|...|+.-...+.+.+.      +++
T Consensus       127 ~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          127 YREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHHH
Confidence            9999999999999887 9999999998999999988  9999999999886 6788889888888888777      899


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcch-HHHHHHHHHHCC-C-CCchhhHHHHhhhHhhcCCC
Q 027412          151 ALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTE-AMQLYDSMLRNG-I-MPDGLLLSTLADYNLQSSGS  218 (223)
Q Consensus       151 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~-~-~p~~~~~~~l~~~~~~~~~~  218 (223)
                      +++.+++++...+ -|...|+.+...+.+.|+... +..+..++.+.+ . ..++..+..+...+.+.|+.
T Consensus       205 El~~~~~aI~~~p-~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~  274 (306)
T 3dra_A          205 ELNYVKDKIVKCP-QNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKY  274 (306)
T ss_dssp             HHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhCC-CCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCH
Confidence            9999999998877 588999999888888888554 555666665432 1 23456667777777765543

>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=99.28  E-value=1.1e-11  Score=83.43  Aligned_cols=158  Identities=13%  Similarity=0.066  Sum_probs=95.1

Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCcc---------------HHH
Q 027412           35 CGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN---------------VVT   99 (223)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~   99 (223)
                      ......|+++++.+.++.-.... ......+..+...+...|++++|+..|++.....+...               ...
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            33444455555555544322111 11334566677777777888888888877776544311               267


Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 027412          100 YSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCK  179 (223)
Q Consensus       100 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  179 (223)
                      |..+..++...|++++|...+++..+.. +.+...+..+..++...|++++|...|++..+..+ .+...+..+..++..
T Consensus        91 ~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~  168 (198)
T 2fbn_A           91 NLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP-NNLDIRNSYELCVNK  168 (198)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHH
Confidence            7778888888888888888888887764 55677888888888888888888888888877654 356677777777777


Q ss_pred             cCCcchHH-HHHHHHHH
Q 027412          180 AGRPTEAM-QLYDSMLR  195 (223)
Q Consensus       180 ~g~~~~a~-~~~~~~~~  195 (223)
                      .++.+++. ..+..+..
T Consensus       169 ~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          169 LKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHHHHC-----------
T ss_pred             HHHHHHHHHHHHHHHhc
Confidence            77666665 44454444

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.28  E-value=2.5e-09  Score=81.08  Aligned_cols=173  Identities=14%  Similarity=0.106  Sum_probs=124.3

Q ss_pred             HHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC---chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhc----CChhH
Q 027412            8 LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN---RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE----GRMDD   80 (223)
Q Consensus         8 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~   80 (223)
                      .+.+..+++.....    ++..+..|..+|...|   +.++|+.+|++..+.+ .++...+..+...|...    +++++
T Consensus       161 ~~~a~~~~~~a~~~----~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~  235 (452)
T 3e4b_A          161 LDDVERICKAALNT----TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKT  235 (452)
T ss_dssp             HHHHHHHHHHHTTT----CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHH
T ss_pred             HHHHHHHHHHHHcC----CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHH
Confidence            34444444444332    2337778888888888   8888999998888877 34565556677777654    68888


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHH-H--HhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC-----CHHHHH
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDG-Y--FKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG-----LMEEAL  152 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~  152 (223)
                      |...|++.. .   -++..+..+... +  ...+++++|..+|++..+.|   +...+..+...|. .|     ++++|.
T Consensus       236 A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~  307 (452)
T 3e4b_A          236 AQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAE  307 (452)
T ss_dssp             HHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHH
T ss_pred             HHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHH
Confidence            888888876 2   255666667766 4  46788889999998888766   6677777777777 45     888888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCcchHHHHHHHHHHCC
Q 027412          153 YAFHCALDNHLLPDVVTYAILIRGYCK----AGRPTEAMQLYDSMLRNG  197 (223)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  197 (223)
                      ++|++.. .   .+...+..+...|..    ..++++|..+|++..+.|
T Consensus       308 ~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  352 (452)
T 3e4b_A          308 AHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG  352 (452)
T ss_dssp             HHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC
Confidence            8888776 3   466777777777766    337888888888888765

>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=99.27  E-value=4.5e-10  Score=69.72  Aligned_cols=95  Identities=13%  Similarity=0.133  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLC  143 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  143 (223)
                      .+..+...+.+.|++++|+..|++..+..+. +...|..+..++...|++++|...+++..+.+ +.+...+..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            3444444555555555555555555554443 44455555555555555555555555555443 333444555555555


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 027412          144 KRGLMEEALYAFHCALD  160 (223)
Q Consensus       144 ~~~~~~~a~~~~~~~~~  160 (223)
                      ..|++++|...|++..+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            55555555555554443

>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=99.27  E-value=2.6e-11  Score=86.17  Aligned_cols=185  Identities=12%  Similarity=0.029  Sum_probs=114.1

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|+..|++..+.. +.+...+..+..++.+.|++++|...+++..+..+ .+...+..+..++...|++++|
T Consensus        14 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A   91 (281)
T 2c2l_A           14 LFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQCQLEMESYDEA   91 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHH
Confidence            346778888888888877764 22677778888888888888888888888876643 2567777788888888888888


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      ...|++..+.++. +...+...+....+.   .+.... ........+.+......+...  ..|++++|.+.++...+.
T Consensus        92 ~~~~~~al~l~p~-~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~i~~~l~~l--~~~~~~~A~~~~~~al~~  164 (281)
T 2c2l_A           92 IANLQRAYSLAKE-QRLNFGDDIPSALRI---AKKKRW-NSIEERRIHQESELHSYLTRL--IAAERERELEECQRNHEG  164 (281)
T ss_dssp             HHHHHHHHHHHHH-TTCCCCSHHHHHHHH---HHHHHH-HHHHHTCCCCCCHHHHHHHHH--HHHHHHHHHTTTSGGGTT
T ss_pred             HHHHHHHHHhCcc-chhhHHHHHHHHHHH---HHHHHH-HHHHHHHHhhhHHHHHHHHHH--HHHHHHHHHHHHHhhhcc
Confidence            8888877765432 111111122222211   111111 112222334454544444332  368889999988888776


Q ss_pred             CCCCCHHHHHHHHHHHHhc-CCcchHHHHHHHHHHC
Q 027412          162 HLLPDVVTYAILIRGYCKA-GRPTEAMQLYDSMLRN  196 (223)
Q Consensus       162 ~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~  196 (223)
                      .+ .+......+...+.+. +.+++|.++|.++.+.
T Consensus       165 ~p-~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          165 HE-DDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TS-CHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             cc-chhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            43 2344444444444444 6688899999877653

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.26  E-value=5.3e-11  Score=75.70  Aligned_cols=99  Identities=13%  Similarity=-0.044  Sum_probs=73.0

Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHH
Q 027412           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILID  140 (223)
Q Consensus        61 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  140 (223)
                      +...+..+...+.+.|++++|...|++....++. +...|..+..++...|++++|...|+++...+ +.+...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            3445566677777778888888888777777665 67777777777778888888888887777764 556667777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC
Q 027412          141 GLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       141 ~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      ++...|++++|.+.|++..+.
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            777788888888777777654

>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=99.26  E-value=1.6e-09  Score=65.93  Aligned_cols=98  Identities=20%  Similarity=0.169  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      ..+..+...+...|++++|...+++.....+. +...+..+..++...|++++|...+++..+.. +.+...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            34444555555555555555555555554433 44455555555555555555555555555442 33445555555555


Q ss_pred             HhcCCHHHHHHHHHHHHhCC
Q 027412          143 CKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ...|++++|.+.+++..+.+
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHhhHHHHHHHHHHHHHcC
Confidence            55555555555555555443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.25  E-value=1.4e-10  Score=73.74  Aligned_cols=110  Identities=11%  Similarity=-0.002  Sum_probs=92.0

Q ss_pred             HHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCC
Q 027412           14 LFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGP   93 (223)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   93 (223)
                      .|+++.... +.+...+..+...+.+.|++++|...|++.....+ .+...|..+..++...|++++|+..|++....++
T Consensus         6 ~l~~al~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p   83 (142)
T 2xcb_A            6 TLAMLRGLS-EDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMDI   83 (142)
T ss_dssp             ---CCTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             hHHHHHcCC-HHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            344444432 22456677888899999999999999999987754 3788899999999999999999999999999987


Q ss_pred             CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           94 KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        94 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      . ++..+..+..++...|++++|...|++..+.
T Consensus        84 ~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           84 N-EPRFPFHAAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             T-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             C-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6 7888889999999999999999999999875

>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=99.25  E-value=3.3e-11  Score=81.06  Aligned_cols=133  Identities=14%  Similarity=0.007  Sum_probs=105.2

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCc---------------HHHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN---------------SITFTILIDAFCKEGRMDDATMMFSKMLE   90 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   90 (223)
                      ....+..+...+...|++++|...|++..+......               ..++..+..++...|++++|+..+++..+
T Consensus        37 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~  116 (198)
T 2fbn_A           37 SAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLK  116 (198)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            345677888899999999999999999987643211               27888899999999999999999999999


Q ss_pred             cCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHH-HHHHHHHh
Q 027412           91 KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEAL-YAFHCALD  160 (223)
Q Consensus        91 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~  160 (223)
                      ..+. +...+..+..++...|++++|...|++..+.. +.+..++..+..++...++.+++. ..+..+..
T Consensus       117 ~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          117 IDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             hCcc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            8765 78899999999999999999999999999874 567788888888888887777666 44544443

>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=99.23  E-value=6.7e-10  Score=68.95  Aligned_cols=113  Identities=16%  Similarity=0.101  Sum_probs=97.5

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIR  175 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  175 (223)
                      +...|..+...+...|++++|...|++..+.. +.+...+..+..++.+.|++++|...+++..+..+ .+...|..+..
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~   80 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHH
Confidence            45678888999999999999999999999875 66789999999999999999999999999998775 46889999999


Q ss_pred             HHHhcCCcchHHHHHHHHHHCCCC------CchhhHHHHhhhH
Q 027412          176 GYCKAGRPTEAMQLYDSMLRNGIM------PDGLLLSTLADYN  212 (223)
Q Consensus       176 ~~~~~g~~~~a~~~~~~~~~~~~~------p~~~~~~~l~~~~  212 (223)
                      ++...|++++|...|++..+.  .      |+.......+..+
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~p~~~~~~~~l~~~  121 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTK--DAEVNNGSSAREIDQLYYKA  121 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--HHHHHTTTTHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHh--CcccCCchhHHHHHHHHHHH
Confidence            999999999999999999874  4      6665555555443

>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=99.22  E-value=1.9e-09  Score=85.14  Aligned_cols=205  Identities=10%  Similarity=0.023  Sum_probs=132.6

Q ss_pred             cccCHHHHH-HHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC---------CC------------c
Q 027412            4 KECHLDAAL-KLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL---------KP------------N   61 (223)
Q Consensus         4 ~~g~~~~A~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------~~------------~   61 (223)
                      +.|+.++|. ++|++.... .+.+...|...+...-+.|++++|.++|+++.....         .|            .
T Consensus       355 ~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~  433 (679)
T 4e6h_A          355 EKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKL  433 (679)
T ss_dssp             HHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             hcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccch
Confidence            345666775 778777664 234566677777777777888888888887764310         12            1


Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhh-CChhHHHHHHHHHHHCCCCCChhHHHHHHH
Q 027412           62 SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS-QNMKSAFDVYEEMCENNISPNIVSYSILID  140 (223)
Q Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  140 (223)
                      ..+|...+....+.|..+.|..+|.+.++..+......|...+..-.+. ++++.|..+|+...+. .+.+...+...+.
T Consensus       434 ~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~  512 (679)
T 4e6h_A          434 TYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLD  512 (679)
T ss_dssp             HHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHH
Confidence            2356666777677777888888888777651111233443333333333 4478888888877765 3556666677777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhH
Q 027412          141 GLCKRGLMEEALYAFHCALDNHLL--PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN  212 (223)
Q Consensus       141 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  212 (223)
                      .....|+.+.|..+|++.......  -....|...+..-...|+.+.+.++.+++.+.  .|+......+++-|
T Consensus       513 fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          513 FLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNKY  584 (679)
T ss_dssp             HHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHHT
T ss_pred             HHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHh
Confidence            777778888888888887765432  13456777777777778888888888888774  56655555555444

>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=99.21  E-value=2.4e-09  Score=65.16  Aligned_cols=112  Identities=17%  Similarity=0.107  Sum_probs=94.2

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (223)
                      ....+..+...+...|++++|...+++.....+ .+...+..+..++...|++++|...+++..+..+. +...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHH
Confidence            456788888999999999999999999987653 37788889999999999999999999999988765 7888899999


Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHH
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISPNIVSYSILID  140 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  140 (223)
                      ++...|++++|...+++..+.+ +.+...+..+..
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  114 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHE-ANNPQLKEGLQN  114 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHcC-CCCHHHHHHHHH
Confidence            9999999999999999998864 445555554443

>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=99.20  E-value=9.2e-10  Score=68.55  Aligned_cols=96  Identities=20%  Similarity=0.240  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC--CCC----hhHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI--SPN----IVSYSI  137 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~  137 (223)
                      ++..++..+.+.|++++|+..|++.++..|. +...|..+..+|...|++++|+..+++.++.+.  .++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            4555666666666666666666666665554 555666666666666666666666666554310  000    124445


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 027412          138 LIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus       138 l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      +..++...|++++|++.|++.+.
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            55555566666666666665554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.19  E-value=1.5e-09  Score=82.21  Aligned_cols=122  Identities=11%  Similarity=0.104  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHhcC---ChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhh----CChhHHHHHHHHHHHCCCCCChhHHH
Q 027412           64 TFTILIDAFCKEG---RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS----QNMKSAFDVYEEMCENNISPNIVSYS  136 (223)
Q Consensus        64 ~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~  136 (223)
                      .+..|...|...|   +.++|++.|++..+.++. +...+..+...|...    +++++|..+|++.. .   .+...+.
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~  252 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWV  252 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHH
Confidence            3344444444444   445555555555444433 333333344444333    34555555555544 1   2333444


Q ss_pred             HHHHH-H--HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-----CcchHHHHHHHHH
Q 027412          137 ILIDG-L--CKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG-----RPTEAMQLYDSML  194 (223)
Q Consensus       137 ~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~a~~~~~~~~  194 (223)
                      .+... +  ...+++++|.++|++..+.|   +...+..+...|. .|     ++++|..+|++..
T Consensus       253 ~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa  314 (452)
T 3e4b_A          253 SLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV  314 (452)
T ss_dssp             HHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh
Confidence            44444 2  23455555555555554443   3344444444444 23     4555555554444

>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=99.19  E-value=6.7e-10  Score=69.17  Aligned_cols=109  Identities=16%  Similarity=0.137  Sum_probs=91.0

Q ss_pred             HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CC----HHHH
Q 027412           97 VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL--PD----VVTY  170 (223)
Q Consensus        97 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~  170 (223)
                      ..++..+...+.+.|++++|+..|++.++.. |.+..+|..+..+|...|++++|++.+++.++..+.  ++    ..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            4567889999999999999999999999875 677889999999999999999999999998764321  11    2467


Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHH
Q 027412          171 AILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTL  208 (223)
Q Consensus       171 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  208 (223)
                      ..+..++...|++++|++.|++.++  ..|++.+...+
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~~~l  122 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLS--EFRDPELVKKV  122 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHHHHH
Confidence            8888999999999999999999987  46776655544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=99.17  E-value=2e-09  Score=70.03  Aligned_cols=96  Identities=15%  Similarity=0.035  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      ..+..+...+.+.|++++|+..|++..+..+. +...|..+..+|...|++++|+..+++..+.+ +.+...+..+..++
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            33444444444444444444444444444333 34444444444444444444444444444432 33344444444444


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 027412          143 CKRGLMEEALYAFHCALD  160 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~  160 (223)
                      ...|++++|...|++..+
T Consensus        90 ~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHH
Confidence            444455555444444443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=99.17  E-value=1.8e-09  Score=70.28  Aligned_cols=101  Identities=18%  Similarity=0.176  Sum_probs=91.5

Q ss_pred             cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHH
Q 027412           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (223)
Q Consensus        25 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (223)
                      .+...+..+...+...|++++|+..|++..+.... +...|..+..+|...|++++|+..|++.++.++. +...|..+.
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg   86 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            35678889999999999999999999999887533 7888999999999999999999999999998876 788999999


Q ss_pred             HHHHhhCChhHHHHHHHHHHHCC
Q 027412          105 DGYFKSQNMKSAFDVYEEMCENN  127 (223)
Q Consensus       105 ~~~~~~~~~~~a~~~~~~~~~~~  127 (223)
                      .++...|++++|...|++..+..
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC
Confidence            99999999999999999998764

>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=99.16  E-value=1.4e-09  Score=67.47  Aligned_cols=96  Identities=18%  Similarity=0.205  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC-------hhHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN-------IVSYS  136 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~~  136 (223)
                      .+..+...+...|++++|...+++.....+. +...+..+..++...|++++|...++++.... +.+       ..++.
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVG-RENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc-cccchhHHHHHHHHH
Confidence            3444555555555555555555555554433 44455555555555555555555555554432 111       34455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412          137 ILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       137 ~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      .+..++...|++++|.+.|++..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh
Confidence            5555555555555555555555543

>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=99.15  E-value=2.3e-09  Score=67.39  Aligned_cols=98  Identities=10%  Similarity=-0.003  Sum_probs=55.1

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (223)
                      +...+..+...+...|++++|...|++.....+. +...+..+..++...|++++|...+++..+.++. +...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHHH
Confidence            3455555555566666666666666655544322 4455555555555566666666666555555444 4555555555


Q ss_pred             HHHhhCChhHHHHHHHHHHH
Q 027412          106 GYFKSQNMKSAFDVYEEMCE  125 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~  125 (223)
                      ++...|++++|...|+++.+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            55556666666655555554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.15  E-value=7e-09  Score=65.87  Aligned_cols=98  Identities=11%  Similarity=-0.006  Sum_probs=56.5

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCc----HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN----SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYS  101 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  101 (223)
                      +...+..+...+...|++++|...|++..+..  |+    ...+..+..++...|++++|...+++..+..+. +...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHH
Confidence            34555566666666666666666666665542  22    445555555666666666666666665555443 455555


Q ss_pred             HHHHHHHhhCChhHHHHHHHHHHHC
Q 027412          102 CLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus       102 ~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      .+..++...|++++|...|++..+.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            5555666666666666666655554

>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=99.15  E-value=3.8e-09  Score=66.31  Aligned_cols=100  Identities=14%  Similarity=0.136  Sum_probs=72.1

Q ss_pred             CcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHH
Q 027412           60 PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILI  139 (223)
Q Consensus        60 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  139 (223)
                      .+...+..+...+...|++++|...|++.....+. +...|..+..++...|++++|...+++..+.+ +.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            35666777777777777777777777777776655 56677777777777777777777777777654 45566777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 027412          140 DGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       140 ~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      .++...|++++|...|++..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            7777777777777777776643

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=99.14  E-value=1.1e-09  Score=66.10  Aligned_cols=93  Identities=12%  Similarity=0.038  Sum_probs=37.6

Q ss_pred             HHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHH
Q 027412          101 SCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLP--DVVTYAILIRGYC  178 (223)
Q Consensus       101 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~  178 (223)
                      ..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|.+.+++..+..+ .  +...+..+..++.
T Consensus        10 ~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~l~~~~~   87 (112)
T 2kck_A           10 YLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIE-DEYNKDVWAAKADALR   87 (112)
T ss_dssp             GGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSC-CTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc-ccchHHHHHHHHHHHH
Confidence            333334444444444444444443332 22333344444444444444444444444443322 1  2334444444444


Q ss_pred             hc-CCcchHHHHHHHHHH
Q 027412          179 KA-GRPTEAMQLYDSMLR  195 (223)
Q Consensus       179 ~~-g~~~~a~~~~~~~~~  195 (223)
                      .. |++++|.+.+++..+
T Consensus        88 ~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           88 YIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             TCSSCSHHHHHHHHHHGG
T ss_pred             HHhCCHHHHHHHHHHHhh
Confidence            44 444444444444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.14  E-value=1e-08  Score=76.98  Aligned_cols=194  Identities=11%  Similarity=0.049  Sum_probs=142.0

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcC----------------HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC-CCcH--
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPD----------------IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-KPNS--   62 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--   62 (223)
                      +.+.|++++|++.|..+.+......                ..++..+...|...|++++|.+.+..+..... .++.  
T Consensus        14 l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~   93 (434)
T 4b4t_Q           14 LVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKT   93 (434)
T ss_dssp             HHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHH
Confidence            4578999999999999887532211                13478899999999999999999998764321 1122  


Q ss_pred             --HHHHHHHHHHHhcCChhHHHHHHHHHHhc----CCC-ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC--C---CCC
Q 027412           63 --ITFTILIDAFCKEGRMDDATMMFSKMLEK----GPK-ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN--N---ISP  130 (223)
Q Consensus        63 --~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~---~~~  130 (223)
                        .+.+.+...+...|+++.+..+++.....    +.. .-..++..+...+...|++++|..+++++...  +   -+.
T Consensus        94 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~  173 (434)
T 4b4t_Q           94 VKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPS  173 (434)
T ss_dssp             HHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchh
Confidence              23444455555678999999998877643    222 23567888999999999999999999988743  1   112


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCC-C--HHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          131 NIVSYSILIDGLCKRGLMEEALYAFHCALDN---HLLP-D--VVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       131 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~-~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      ...++..++..|...|++++|...+++....   ...| .  ...+..+...+...|++++|...|.+..+
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          174 LVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            2457888999999999999999999887642   1112 1  24567777888899999999998887764

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.14  E-value=7.5e-09  Score=65.70  Aligned_cols=110  Identities=13%  Similarity=0.067  Sum_probs=72.2

Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCcc---HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHH
Q 027412           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN---VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSI  137 (223)
Q Consensus        61 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  137 (223)
                      +...+..+...+...|++++|...|++..+..+. +   ...+..+..++...|++++|...+++..+.. +.+...+..
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  104 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDAT-PQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYR  104 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHccc-chHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHH
Confidence            4566667777777777777777777777765443 2   5566667777777777777777777776653 445666667


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 027412          138 LIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAIL  173 (223)
Q Consensus       138 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  173 (223)
                      +..++...|++++|...|++..+..+ .+...+..+
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l  139 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSLEP-KNKVFQEAL  139 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCS-SCHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHH
Confidence            77777777777777777777665543 234444333

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=99.12  E-value=1.8e-09  Score=66.64  Aligned_cols=91  Identities=13%  Similarity=0.038  Sum_probs=42.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC
Q 027412           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL  147 (223)
Q Consensus        68 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  147 (223)
                      +...+.+.|++++|+..|++..+..+. +...|..+..++...|++++|+..|++..+.+ +.+...+..+..++...|+
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~  100 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN  100 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            334444444444454444444444433 44444444444444445555544444444432 3334444444444444444


Q ss_pred             HHHHHHHHHHHHh
Q 027412          148 MEEALYAFHCALD  160 (223)
Q Consensus       148 ~~~a~~~~~~~~~  160 (223)
                      +++|...+++.++
T Consensus       101 ~~~A~~~~~~al~  113 (121)
T 1hxi_A          101 ANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHH
Confidence            4444444444443

>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=99.12  E-value=7.8e-10  Score=78.56  Aligned_cols=146  Identities=10%  Similarity=-0.024  Sum_probs=94.2

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC----CcHHHHHHHHHHHHhcCC
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK----PNSITFTILIDAFCKEGR   77 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~   77 (223)
                      |.+.|++++|+..+++..+.. +.+...+..+..++...|++++|...|++..+..+.    .....+..+  ...+.  
T Consensus        48 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~--~~~~~--  122 (281)
T 2c2l_A           48 YLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSAL--RIAKK--  122 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHH--HHHHH--
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHH--HHHHH--
Confidence            567899999999999999875 336788999999999999999999999998765311    011122211  11111  


Q ss_pred             hhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc-CCHHHHHHHHH
Q 027412           78 MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR-GLMEEALYAFH  156 (223)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~  156 (223)
                          ... ..........+......+...  ..|++++|.+.++...+.+ +.+......+...+.+. +.++++.++|.
T Consensus       123 ----~~~-~~~~~~~~~~~~~i~~~l~~l--~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~a~~~f~  194 (281)
T 2c2l_A          123 ----KRW-NSIEERRIHQESELHSYLTRL--IAAERERELEECQRNHEGH-EDDGHIRAQQACIEAKHDKYMADMDELFS  194 (281)
T ss_dssp             ----HHH-HHHHHTCCCCCCHHHHHHHHH--HHHHHHHHHTTTSGGGTTT-SCHHHHTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ----HHH-HHHHHHHHhhhHHHHHHHHHH--HHHHHHHHHHHHHhhhccc-cchhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence                111 112222233344444444332  3689999999998887753 34444445555555554 67889999998


Q ss_pred             HHHh
Q 027412          157 CALD  160 (223)
Q Consensus       157 ~~~~  160 (223)
                      .+.+
T Consensus       195 ~a~~  198 (281)
T 2c2l_A          195 QVDE  198 (281)
T ss_dssp             HSSC
T ss_pred             hhhc
Confidence            8765

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=99.10  E-value=2.9e-09  Score=64.19  Aligned_cols=101  Identities=17%  Similarity=0.113  Sum_probs=90.5

Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCC--ChhHHHHH
Q 027412           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP--NIVSYSIL  138 (223)
Q Consensus        61 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l  138 (223)
                      +...+..+...+...|++++|...+++..+..+. +...+..+..++...|++++|...+++..+.. +.  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            4566778899999999999999999999998766 77889999999999999999999999999874 55  68899999


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHhCCC
Q 027412          139 IDGLCKR-GLMEEALYAFHCALDNHL  163 (223)
Q Consensus       139 ~~~~~~~-~~~~~a~~~~~~~~~~~~  163 (223)
                      ..++... |++++|.+.+++.....+
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhccc
Confidence            9999999 999999999999988765

>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=99.10  E-value=2.4e-09  Score=81.60  Aligned_cols=117  Identities=13%  Similarity=0.097  Sum_probs=76.6

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|++.|++..+.. +.+...+..+..++.+.|++++|+..+++..+..+. +..++..+..+|...|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHH
Confidence            456677777777777776653 224667777777777777777777777777766432 566677777777777777777


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHH--HHhhCChhHHHHHHH
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDG--YFKSQNMKSAFDVYE  121 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  121 (223)
                      ++.+++..+..+. +...+..+..+  +.+.|++++|.+.++
T Consensus        94 ~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            7777777776554 44455555555  666777777777776

>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=99.09  E-value=1.1e-07  Score=68.47  Aligned_cols=191  Identities=12%  Similarity=0.028  Sum_probs=148.5

Q ss_pred             ccCHH-HHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCc----------hhHHHHHHHHHHhCCCCCcHHHHHHHHHHHH
Q 027412            5 ECHLD-AALKLFGQLTDRGLEPDIITYNTIICGYCSLNR----------LDEAVQLFEKLTCVQLKPNSITFTILIDAFC   73 (223)
Q Consensus         5 ~g~~~-~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   73 (223)
                      .|.+. +|+++++.+...++. +..+|+.--.++...+.          +++++.+++.+....++ +..+|+.-.-++.
T Consensus        42 ~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~  119 (331)
T 3dss_A           42 AGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLS  119 (331)
T ss_dssp             TTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHh
Confidence            34444 789999999887533 45566655444444443          67899999999877644 8888888777777


Q ss_pred             hcC--ChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCC-hhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc-----
Q 027412           74 KEG--RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN-MKSAFDVYEEMCENNISPNIVSYSILIDGLCKR-----  145 (223)
Q Consensus        74 ~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----  145 (223)
                      ..+  .+++++.+++++.+.++. |..+|+.-..+....|. ++++++.++++++.+ +-|..+|+.....+.+.     
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSCCC-
T ss_pred             ccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhhccc
Confidence            777  489999999999999887 89999998888888888 589999999999886 77888888887777765     


Q ss_pred             ---------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----------CCcchHHHHHHHHHHCCCCCch
Q 027412          146 ---------GLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA-----------GRPTEAMQLYDSMLRNGIMPDG  202 (223)
Q Consensus       146 ---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~~~~p~~  202 (223)
                               +.++++++.+.......+ -|...|+.+-..+...           +.++++++.++++.+  +.|+.
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~P-~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle--~~pd~  271 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQE--LEPEN  271 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHH--HCTTC
T ss_pred             cccccccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHh--hCccc
Confidence                     458899999999988776 4778887655555444           357789999999998  57775

>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=99.09  E-value=3e-09  Score=66.00  Aligned_cols=114  Identities=14%  Similarity=0.201  Sum_probs=93.3

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC--cc----HHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK--AN----VVTY  100 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~  100 (223)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++.....+.  ++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4577888899999999999999999998765 336788889999999999999999999998886542  11    6788


Q ss_pred             HHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHH
Q 027412          101 SCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLC  143 (223)
Q Consensus       101 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  143 (223)
                      ..+..++...|++++|...|+++.+.  .|+......+.....
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~  123 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQAEK  123 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHHHHH
Confidence            88999999999999999999999885  456666655554443

>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=99.08  E-value=4.9e-08  Score=70.74  Aligned_cols=171  Identities=15%  Similarity=0.078  Sum_probs=107.6

Q ss_pred             CHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC-chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhc-C-ChhHHHH
Q 027412            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE-G-RMDDATM   83 (223)
Q Consensus         7 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~a~~   83 (223)
                      ..++|+++++.+....+. +..+|+.--.++...| .+++++.+++.+....++ +..+|+.-..++.+. + ++++++.
T Consensus        69 ~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~  146 (349)
T 3q7a_A           69 KSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIE  146 (349)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHH
T ss_pred             CCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHH
Confidence            345677777777666432 4555666666666666 477777777777766544 666666666555555 5 6777777


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChh--------HHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC-------H
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMK--------SAFDVYEEMCENNISPNIVSYSILIDGLCKRGL-------M  148 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~  148 (223)
                      +++++.+.+++ |..+|+.-..+..+.+.++        ++++.++++.+.+ +-|..+|+.....+.+.+.       +
T Consensus       147 ~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~  224 (349)
T 3q7a_A          147 YIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSL  224 (349)
T ss_dssp             HHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHH
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHH
Confidence            77777776665 6667766666666655555        6777777777664 5566667666666666654       5


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 027412          149 EEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR  182 (223)
Q Consensus       149 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  182 (223)
                      +++++.+++++...+ -|...|+.+-..+.+.|+
T Consensus       225 ~eELe~~~~aI~~~P-~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          225 QDELIYILKSIHLIP-HNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCC
Confidence            666666666665554 355555555444444443

>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=99.06  E-value=7.4e-09  Score=78.56  Aligned_cols=131  Identities=15%  Similarity=-0.009  Sum_probs=90.0

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCc--------------HHHHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN--------------SITFTILIDAFCKEGRMDDATMMFSKMLEKG   92 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   92 (223)
                      ...+..+...+.+.|++++|...|++..+......              ..+|..+..+|.+.|++++|+..+++.++..
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            44677777788888888888888888776532211              4667777777777888888888887777776


Q ss_pred             CCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHH-HHHHHH
Q 027412           93 PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALY-AFHCAL  159 (223)
Q Consensus        93 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~  159 (223)
                      +. +...|..+..+|...|++++|...|+++.+.. +.+..++..+..++.+.++.+++.+ .+..|.
T Consensus       348 p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          348 SA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             TT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             Cc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            65 66777777777778888888888887777754 4556677777777777777766653 344443

>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=99.06  E-value=2e-09  Score=82.06  Aligned_cols=124  Identities=13%  Similarity=0.119  Sum_probs=102.7

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh
Q 027412           30 YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK  109 (223)
Q Consensus        30 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  109 (223)
                      +..+...+.+.|++++|.+.+++..+.... +..++..+..+|.+.|++++|+..+++..+..+. +..+|..+..+|..
T Consensus         9 ~~~lg~~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~   86 (477)
T 1wao_1            9 LKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMA   86 (477)
T ss_dssp             SSSSSSSTTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            344555677899999999999999887533 6889999999999999999999999999998776 78899999999999


Q ss_pred             hCChhHHHHHHHHHHHCCCCCChhHHHHHHHH--HHhcCCHHHHHHHHH
Q 027412          110 SQNMKSAFDVYEEMCENNISPNIVSYSILIDG--LCKRGLMEEALYAFH  156 (223)
Q Consensus       110 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  156 (223)
                      .|++++|...++++.+.. +.+...+..+..+  +.+.|++++|.+.++
T Consensus        87 ~g~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           87 LGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999999864 4556677777666  888999999999998

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=99.04  E-value=6.5e-09  Score=64.07  Aligned_cols=96  Identities=14%  Similarity=0.050  Sum_probs=85.8

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHH
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF  108 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  108 (223)
                      .+..+...+.+.|++++|...|++..+..+. +...|..+..++...|++++|+..|++..+.++. +...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            4566778889999999999999999887543 7888999999999999999999999999999877 7889999999999


Q ss_pred             hhCChhHHHHHHHHHHHC
Q 027412          109 KSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus       109 ~~~~~~~a~~~~~~~~~~  126 (223)
                      ..|++++|...+++..+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            999999999999999875

>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=99.03  E-value=7.9e-09  Score=78.43  Aligned_cols=150  Identities=15%  Similarity=0.096  Sum_probs=117.5

Q ss_pred             chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCcc--------------HHHHHHHHHHH
Q 027412           42 RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN--------------VVTYSCLIDGY  107 (223)
Q Consensus        42 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~  107 (223)
                      ++++|...|+...+.. .-....+..+...+.+.|++++|...|++.++..+...              ...|..+..+|
T Consensus       249 ~~~~A~~~~~~~~~~~-~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~  327 (457)
T 1kt0_A          249 SFEKAKESWEMDTKEK-LEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCY  327 (457)
T ss_dssp             EEECCCCGGGSCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcccCcchhhcCHHHH-HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555544333221 11456788899999999999999999999998765522              57899999999


Q ss_pred             HhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHH
Q 027412          108 FKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAM  187 (223)
Q Consensus       108 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  187 (223)
                      .+.|++++|+..++++++.. +.+...+..+..+|...|++++|...|+++++..+ .+...+..+..++...++++++.
T Consensus       328 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          328 LKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999875 66788999999999999999999999999998765 36678888999999999888776


Q ss_pred             H-HHHHHH
Q 027412          188 Q-LYDSML  194 (223)
Q Consensus       188 ~-~~~~~~  194 (223)
                      + .+..|.
T Consensus       406 ~~~~~~~f  413 (457)
T 1kt0_A          406 RRIYANMF  413 (457)
T ss_dssp             HHHHHHC-
T ss_pred             HHHHHHHH
Confidence            4 445554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=99.03  E-value=4.4e-08  Score=60.69  Aligned_cols=90  Identities=20%  Similarity=0.211  Sum_probs=39.7

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCccH---HHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC---hhHHHHHHHHH
Q 027412           69 IDAFCKEGRMDDATMMFSKMLEKGPKANV---VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN---IVSYSILIDGL  142 (223)
Q Consensus        69 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~  142 (223)
                      ...+...|++++|...|++..+..+. +.   ..+..+..++...|++++|...++++.... +.+   ..++..+..++
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHH
Confidence            33444444444444444444443332 12   234444444444444444444444444432 222   33344444444


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 027412          143 CKRGLMEEALYAFHCALD  160 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~  160 (223)
                      ...|++++|...|+++.+
T Consensus        87 ~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            444444444444444443

>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=99.03  E-value=1.1e-07  Score=75.19  Aligned_cols=205  Identities=5%  Similarity=-0.044  Sum_probs=151.3

Q ss_pred             HHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHH-HHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHH
Q 027412            9 DAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAV-QLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSK   87 (223)
Q Consensus         9 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   87 (223)
                      +.+..+|++....- +.....|...+..+...|+.++|. .+|++..... +.+...|...+....+.|++++|..+|++
T Consensus       326 ~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek  403 (679)
T 4e6h_A          326 ARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILS  403 (679)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            44567788877653 447888999999899999999997 9999998643 44677787888888899999999999999


Q ss_pred             HHhcCC---------Cc------------cHHHHHHHHHHHHhhCChhHHHHHHHHHHHC-CCCCChhHHHHHHHHHHhc
Q 027412           88 MLEKGP---------KA------------NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN-NISPNIVSYSILIDGLCKR  145 (223)
Q Consensus        88 ~~~~~~---------~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~  145 (223)
                      ++...+         .|            ...+|...+....+.|+.+.|..+|..+.+. + ......|...+..-.+.
T Consensus       404 ~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~  482 (679)
T 4e6h_A          404 CIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHI  482 (679)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHh
Confidence            886410         12            2347888888888999999999999999875 2 22344555444444444


Q ss_pred             -CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCC--chhhHHHHhhhHhhcCC
Q 027412          146 -GLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMP--DGLLLSTLADYNLQSSG  217 (223)
Q Consensus       146 -~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~~~  217 (223)
                       ++.+.|.++|+..++.-+ .+...|...+......|+.+.|..+|++.+.....+  ....|...+..=.+.|.
T Consensus       483 ~~d~e~Ar~ife~~Lk~~p-~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~  556 (679)
T 4e6h_A          483 SKDTKTACKVLELGLKYFA-TDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGS  556 (679)
T ss_dssp             TSCCHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHHCC-CchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCC
Confidence             458999999999987633 466777888888889999999999999998863221  22344444444344443

>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=99.03  E-value=1.8e-07  Score=67.77  Aligned_cols=179  Identities=7%  Similarity=-0.024  Sum_probs=141.3

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcC-ChhHHHHHHHHHHhcCCCccHHHHHHHHHHHH
Q 027412           30 YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG-RMDDATMMFSKMLEKGPKANVVTYSCLIDGYF  108 (223)
Q Consensus        30 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  108 (223)
                      ++.+-....+.+..++|+++++++...++. +..+|+.-...+...| .+++++.+++.+...+++ +..+|+.-..++.
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~  134 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLD  134 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHH
Confidence            333333444455667899999999988654 7778888888888888 599999999999999887 8899999888888


Q ss_pred             hh-C-ChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHH--------HHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 027412          109 KS-Q-NMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLME--------EALYAFHCALDNHLLPDVVTYAILIRGYC  178 (223)
Q Consensus       109 ~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  178 (223)
                      .. + ++++++.+++++.+.+ +-+..+|+.-..++.+.|.++        ++++.++++.+.++ -|...|+.....+.
T Consensus       135 ~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~  212 (349)
T 3q7a_A          135 RISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRV  212 (349)
T ss_dssp             HHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHT
T ss_pred             HhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            87 7 8999999999999876 678888888777777777666        99999999998877 48889999888888


Q ss_pred             hcCC-------cchHHHHHHHHHHCCCCCchhhHHHHhhhHhh
Q 027412          179 KAGR-------PTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQ  214 (223)
Q Consensus       179 ~~g~-------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  214 (223)
                      +.++       ++++++.+++++.  ..|+..+...-+..++.
T Consensus       213 ~l~~~~~~~~~~~eELe~~~~aI~--~~P~n~SaW~Ylr~Ll~  253 (349)
T 3q7a_A          213 SRPGAETSSRSLQDELIYILKSIH--LIPHNVSAWNYLRGFLK  253 (349)
T ss_dssp             TSTTCCCCHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHH
T ss_pred             hccccccchHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHH
Confidence            8886       6788999988887  46665544444444433

>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=99.02  E-value=1e-07  Score=74.19  Aligned_cols=171  Identities=8%  Similarity=0.006  Sum_probs=137.9

Q ss_pred             chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCC----------hhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC
Q 027412           42 RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR----------MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ  111 (223)
Q Consensus        42 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  111 (223)
                      ..++|++.++++...++. +..+|+.-..++...|+          +++++..++.+.+.+++ +..+|+.-..++.+.+
T Consensus        44 ~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcc
Confidence            356789999999887644 67778777777777776          89999999999999888 8999999999999999


Q ss_pred             --ChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc--------
Q 027412          112 --NMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRG-LMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA--------  180 (223)
Q Consensus       112 --~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------  180 (223)
                        ++++++..++++.+.+ +-+..+|+.-..++.+.| .++++++.++++.+.++ -|...|+.....+...        
T Consensus       122 ~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p-~n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          122 EPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC-CCccHHHHHHHHHHhhcccccccc
Confidence              6699999999999986 778899999998899999 89999999999998877 4888888887777664        


Q ss_pred             ------CCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcCCC
Q 027412          181 ------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGS  218 (223)
Q Consensus       181 ------g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  218 (223)
                            +.++++++.++++..  +.|+........+.+...++.
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~--~~P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFF--TDPNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHH--HCSSCSHHHHHHHHHHSCCCC
T ss_pred             cccccHHHHHHHHHHHHHHHh--hCCCCccHHHHHHHHHhcCCC
Confidence                  456889999998887  467655444444444444433

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=99.01  E-value=1.9e-08  Score=62.32  Aligned_cols=107  Identities=12%  Similarity=0.008  Sum_probs=87.5

Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHHHCCCCCCh---hHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHH
Q 027412          100 YSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI---VSYSILIDGLCKRGLMEEALYAFHCALDNHLLPD---VVTYAIL  173 (223)
Q Consensus       100 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l  173 (223)
                      +..+...+...|++++|...|+.+.+.. +.+.   ..+..+..++...|++++|...+++..+..+. +   ...+..+
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~l   82 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHH
Confidence            4457788899999999999999998864 3344   58888999999999999999999999886543 3   6778889


Q ss_pred             HHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhh
Q 027412          174 IRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLAD  210 (223)
Q Consensus       174 ~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  210 (223)
                      ..++...|++++|...|+++.+.  .|+.........
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~a~~  117 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQ--YPGSDAARVAQE  117 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--STTSHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH--CCCChHHHHHHH
Confidence            99999999999999999999985  566554444333

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=99.00  E-value=9.2e-09  Score=66.70  Aligned_cols=65  Identities=15%  Similarity=0.148  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           97 VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        97 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ...|..+..+|.+.|++++|+..++++++.+ +.+...|..+..++...|++++|...|++..+..
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            3455556666666666666666666666543 4445566666666666666666666666655543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=99.00  E-value=8.3e-09  Score=66.36  Aligned_cols=131  Identities=18%  Similarity=0.107  Sum_probs=62.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCC---c--cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC----CCC-ChhH
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPK---A--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN----ISP-NIVS  134 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~  134 (223)
                      +..+...+...|++++|...+++.......   +  ...++..+...+...|++++|...+++.....    .++ ...+
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            444444444455555555554444332110   0  01244445555555555555555555544320    000 1234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          135 YSILIDGLCKRGLMEEALYAFHCALDN----HL-LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       135 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      +..+...+...|++++|.+.+++..+.    +. ......+..+...+...|++++|...+++..+
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            455555556666666666665554421    11 01123455566666666666666666666554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=99.00  E-value=1.2e-08  Score=66.14  Aligned_cols=80  Identities=16%  Similarity=0.055  Sum_probs=67.0

Q ss_pred             CChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh-hHHHH
Q 027412          130 PNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL-LLSTL  208 (223)
Q Consensus       130 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l  208 (223)
                      .+...|..+..+|.+.|++++|+..+++.++.++ .+...|..+..++...|++++|...|++.++  +.|+.. .....
T Consensus        61 ~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~~  137 (162)
T 3rkv_A           61 KNIPLYANMSQCYLNIGDLHEAEETSSEVLKREE-TNEKALFRRAKARIAAWKLDEAEEDLKLLLR--NHPAAASVVARE  137 (162)
T ss_dssp             THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCC-cchHHHHHHHHHHHHHhcHHHHHHHHHHHHh--cCCCCHHHHHHH
Confidence            3456889999999999999999999999998775 4788999999999999999999999999998  467765 54444


Q ss_pred             hhhH
Q 027412          209 ADYN  212 (223)
Q Consensus       209 ~~~~  212 (223)
                      +..+
T Consensus       138 l~~~  141 (162)
T 3rkv_A          138 MKIV  141 (162)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4433

>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=99.00  E-value=1.1e-08  Score=75.44  Aligned_cols=122  Identities=16%  Similarity=0.089  Sum_probs=84.0

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHh----------------cCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLE----------------KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~----------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  127 (223)
                      .+..+...+.+.|++++|+..|++.++                ..+. +..+|..+..+|.+.|++++|...++++++..
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~-~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPV-ALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHH-HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            455666667777777777777776665                2222 45667777777888888888888888877764


Q ss_pred             CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHH
Q 027412          128 ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQ  188 (223)
Q Consensus       128 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  188 (223)
                       +.+...+..+..+|...|++++|.+.|+++.+..+ .+...+..+..++...++.+++.+
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P-~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHH
Confidence             45667777777888888888888888887776654 256666666666666666555543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.00  E-value=2.4e-08  Score=70.09  Aligned_cols=141  Identities=9%  Similarity=-0.090  Sum_probs=109.5

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCcc--HHHHHHHHH
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN--VVTYSCLID  105 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~  105 (223)
                      .....+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  ...+..+..
T Consensus       103 dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~  179 (282)
T 4f3v_A          103 AITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGV  179 (282)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHH
Confidence            345567788999999999999999987654  443366677888999999999999998654432 221  346778999


Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCC--ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISP--NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAIL  173 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  173 (223)
                      ++...|++++|+..|++.......|  ..........++.+.|+.++|...|+++...++  +...+..|
T Consensus       180 al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P--~~~~~~aL  247 (282)
T 4f3v_A          180 AAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHP--EPKVAAAL  247 (282)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSC--CHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC--cHHHHHHH
Confidence            9999999999999999998543314  345778888999999999999999999998764  44444443

>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=98.99  E-value=1.4e-08  Score=74.96  Aligned_cols=125  Identities=11%  Similarity=-0.017  Sum_probs=105.5

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhC---------------CCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCV---------------QLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   91 (223)
                      ...+..+...+.+.|++++|+..|++..+.               ..+.+..+|..+..+|.+.|++++|+..+++.++.
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               11224578889999999999999999999999998


Q ss_pred             CCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHH
Q 027412           92 GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALY  153 (223)
Q Consensus        92 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  153 (223)
                      .+. +...|..+..+|...|++++|...|+++.+.. +.+...+..+..++...++.+++.+
T Consensus       303 ~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          303 DPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             CTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             Cch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            776 78899999999999999999999999999874 5577788888888888887777654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.99  E-value=3.1e-09  Score=65.07  Aligned_cols=84  Identities=12%  Similarity=0.087  Sum_probs=37.3

Q ss_pred             CchhHHHHHHHHHHhCC--CCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHH
Q 027412           41 NRLDEAVQLFEKLTCVQ--LKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFD  118 (223)
Q Consensus        41 ~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  118 (223)
                      |++++|+..|++..+.+  -+.+..++..+..+|...|++++|+..|++..+..+. +..++..+..++...|++++|..
T Consensus         4 g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHHH
Confidence            44444444444444332  0112334444444455555555555555555444443 34444444455555555555555


Q ss_pred             HHHHHHH
Q 027412          119 VYEEMCE  125 (223)
Q Consensus       119 ~~~~~~~  125 (223)
                      .+++...
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5544443

>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=98.97  E-value=8.9e-08  Score=74.48  Aligned_cols=173  Identities=12%  Similarity=-0.002  Sum_probs=143.9

Q ss_pred             HHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCc----------hhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcC-
Q 027412            8 LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNR----------LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG-   76 (223)
Q Consensus         8 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-   76 (223)
                      -++|++.++.+....+. +..+|+.--.++...|+          ++++++.++.+.+..++ +..+|+.-.-++.+.+ 
T Consensus        45 ~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           45 DESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSS
T ss_pred             CHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHccc
Confidence            35678999998887533 56678777777777777          89999999999988755 8888988888888889 


Q ss_pred             -ChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC-ChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc---------
Q 027412           77 -RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ-NMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR---------  145 (223)
Q Consensus        77 -~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------  145 (223)
                       ++++++..++++.+.++. +..+|+.-..+..+.| .++++++.++++++.+ +-+..+|+.....+.+.         
T Consensus       123 ~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccccc
Confidence             679999999999999887 8999999998999999 8999999999999876 67888998888887764         


Q ss_pred             -----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcch
Q 027412          146 -----GLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTE  185 (223)
Q Consensus       146 -----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  185 (223)
                           +.++++++.++++....+ -+...|..+-..+...+++++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P-~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCS-SCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccHHHHHHHHHHHHHHHhhCC-CCccHHHHHHHHHhcCCCccc
Confidence                 567999999999988776 477888888888877777554

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.97  E-value=9.1e-09  Score=66.16  Aligned_cols=134  Identities=15%  Similarity=0.082  Sum_probs=104.0

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC---CC--cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC-----cc
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL---KP--NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK-----AN   96 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~   96 (223)
                      ..++..+...+...|++++|...+++..+...   .+  ...++..+...+...|++++|...+++.......     ..
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            45678888999999999999999998865421   11  1247888999999999999999999987764211     12


Q ss_pred             HHHHHHHHHHHHhhCChhHHHHHHHHHHHC----CCC-CChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           97 VVTYSCLIDGYFKSQNMKSAFDVYEEMCEN----NIS-PNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        97 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      ...+..+..++...|++++|...+++....    +.+ ....++..+...+...|++++|.+.+++..+
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            456788899999999999999999988743    111 1245678889999999999999999988764

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.96  E-value=4.5e-09  Score=76.60  Aligned_cols=148  Identities=13%  Similarity=0.046  Sum_probs=72.6

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHH
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (223)
                      ..+..+...+.+.|++++|...|++....  .|+...       +...++.+++...+          ....|..+..++
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH----------HHHHHHHHHHHH
Confidence            34555556666666666666666666543  222221       11112222222111          113677788888


Q ss_pred             HhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCCcchH
Q 027412          108 FKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRG-YCKAGRPTEA  186 (223)
Q Consensus       108 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a  186 (223)
                      .+.|++++|+..+++.++.. +.+...+..+..+|...|++++|...|++..+..+ .+...+..+... ....+..+++
T Consensus       241 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p-~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAP-DDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888888764 55677888888888888888888888888876554 244555555554 3345667777


Q ss_pred             HHHHHHHHHC
Q 027412          187 MQLYDSMLRN  196 (223)
Q Consensus       187 ~~~~~~~~~~  196 (223)
                      ..+|.++...
T Consensus       319 ~~~~~~~l~~  328 (338)
T 2if4_A          319 KEMYKGIFKG  328 (338)
T ss_dssp             ----------
T ss_pred             HHHHHHhhCC
Confidence            8888887763

>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=98.94  E-value=1.2e-06  Score=63.20  Aligned_cols=189  Identities=7%  Similarity=-0.022  Sum_probs=146.9

Q ss_pred             HHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC--chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCC-hhHHHHH
Q 027412            8 LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN--RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR-MDDATMM   84 (223)
Q Consensus         8 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~   84 (223)
                      +++++.+++.+....++ +..+|+.-..++...+  .+++++.+++++.+..+. +..+|+.-..+....|. ++++++.
T Consensus        90 l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            68899999999887644 7888888888888888  489999999999988754 88888888888888888 5899999


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhh--------------CChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc-----
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKS--------------QNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKR-----  145 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----  145 (223)
                      +++++..++. |..+|+.....+...              +.++++++.+.+..... |-|..+|+-+-..+.+.     
T Consensus       168 ~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~  245 (331)
T 3dss_A          168 TDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCE  245 (331)
T ss_dssp             HHHHHHHCSC-CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGG
T ss_pred             HHHHHHHCCC-CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccc
Confidence            9999999887 888998887777766              45788999999999875 77888887666666555     


Q ss_pred             ------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH---HHhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          146 ------GLMEEALYAFHCALDNHLLPDVVTYAILIRG---YCKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       146 ------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                            +.++++++.++++.+..+. +...+..++..   ....|..+++...+.++.+  +.|-..
T Consensus       246 ~~~~~~~~l~~el~~~~elle~~pd-~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~--~Dp~r~  309 (331)
T 3dss_A          246 LSVEKSTVLQSELESCKELQELEPE-NKWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRA  309 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH--HCGGGH
T ss_pred             cchHHHHHHHHHHHHHHHHHhhCcc-cchHHHHHHHHHHhhcccccHHHHHHHHHHHHH--hCcchh
Confidence                  4588999999999886652 33333333222   2245777889999999987  566654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.93  E-value=4.8e-09  Score=64.19  Aligned_cols=87  Identities=14%  Similarity=0.052  Sum_probs=54.4

Q ss_pred             cCChhHHHHHHHHHHhcCC--CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHH
Q 027412           75 EGRMDDATMMFSKMLEKGP--KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEAL  152 (223)
Q Consensus        75 ~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  152 (223)
                      .|++++|+..|++..+.++  +.+...+..+..++...|++++|...|+++.+.. |.+..++..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            4666777777777766531  1245566667777777777777777777776654 445666666777777777777777


Q ss_pred             HHHHHHHhCC
Q 027412          153 YAFHCALDNH  162 (223)
Q Consensus       153 ~~~~~~~~~~  162 (223)
                      ..+++.....
T Consensus        82 ~~~~~al~~~   91 (117)
T 3k9i_A           82 ELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhC
Confidence            7777666543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.92  E-value=9.3e-09  Score=74.95  Aligned_cols=126  Identities=10%  Similarity=0.000  Sum_probs=82.9

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGL  142 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  142 (223)
                      ..+..+...+.+.|++++|...|++.....+  +...       +...++++++...+          ....|..+..+|
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p--~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAYMG--DDFM-------FQLYGKYQDMALAV----------KNPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHHSC--HHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhc--cchh-------hhhcccHHHHHHHH----------HHHHHHHHHHHH
Confidence            3455666677777777777777777766533  2211       12223333332222          123788999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhh
Q 027412          143 CKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLAD  210 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  210 (223)
                      .+.|++++|+..+++.++..+ .+...|..+..++...|++++|...|++..+  +.|+.......+.
T Consensus       241 ~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~--l~p~~~~a~~~L~  305 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEEE-KNPKALFRRGKAKAELGQMDSARDDFRKAQK--YAPDDKAIRRELR  305 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------
T ss_pred             HHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHH
Confidence            999999999999999998765 4788999999999999999999999999887  4666544443333

>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=98.85  E-value=1.3e-07  Score=60.40  Aligned_cols=95  Identities=13%  Similarity=0.047  Sum_probs=53.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCc-----------cHHHHHHHHHHHHhhCChhHHHHHHHHHHHC-------
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPKA-----------NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN-------  126 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------  126 (223)
                      +......+.+.|++++|+..|++.++..+..           +...|..+..++.+.|++++|+..+++.++.       
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            4445555555666666666666665544331           1225666666666666666666666666553       


Q ss_pred             CCCCChhHH----HHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412          127 NISPNIVSY----SILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus       127 ~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      + |.+...|    .....++...|++++|+..|++.++
T Consensus        94 ~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           94 N-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             T-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             C-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            3 2334455    5566666666666666666665543

>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=98.82  E-value=2e-07  Score=59.53  Aligned_cols=99  Identities=11%  Similarity=-0.025  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC------c-----HHHHHHHHHHHHhcCChhHHHHHHHHHHhc----
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP------N-----SITFTILIDAFCKEGRMDDATMMFSKMLEK----   91 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----   91 (223)
                      ...+......+.+.|++++|+..|++..+..+..      +     ...|..+..++.+.|++++|+..+++.++.    
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            3456677788889999999999999998764331      2     238999999999999999999999999988    


Q ss_pred             ---CCCccHHHH----HHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           92 ---GPKANVVTY----SCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        92 ---~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                         ++. +...|    .....++...|++++|+..|++..+.
T Consensus        91 ~e~~pd-~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           91 GELNQD-EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             CCTTST-HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCCCc-hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence               776 77788    89999999999999999999999864

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.79  E-value=5.7e-07  Score=67.49  Aligned_cols=164  Identities=12%  Similarity=-0.009  Sum_probs=121.9

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCc----------------HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC-c
Q 027412           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPN----------------SITFTILIDAFCKEGRMDDATMMFSKMLEKGPK-A   95 (223)
Q Consensus        33 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~   95 (223)
                      -...+.+.|++++|++.|..+.+......                ...+..++..|...|++++|.+.+..+...-.. +
T Consensus        10 ~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~   89 (434)
T 4b4t_Q           10 EARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFA   89 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence            34567889999999999999987642211                134778999999999999999999887653211 1


Q ss_pred             cH----HHHHHHHHHHHhhCChhHHHHHHHHHHHC----CCC-CChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CC-
Q 027412           96 NV----VTYSCLIDGYFKSQNMKSAFDVYEEMCEN----NIS-PNIVSYSILIDGLCKRGLMEEALYAFHCALDN--HL-  163 (223)
Q Consensus        96 ~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~-  163 (223)
                      +.    .+.+.+...+...|+++.+..+++.....    +.. .-..++..++..+...|++++|..+++++...  +. 
T Consensus        90 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~  169 (434)
T 4b4t_Q           90 KSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLD  169 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSS
T ss_pred             chHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcc
Confidence            11    23444555566778999999999887642    222 23457888999999999999999999987642  11 


Q ss_pred             --CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          164 --LPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       164 --~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                        ......+..++..|...|++++|..++++....
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~  204 (434)
T 4b4t_Q          170 DKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTA  204 (434)
T ss_dssp             CSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence              123467889999999999999999999988753

>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=98.75  E-value=8.9e-07  Score=55.73  Aligned_cols=55  Identities=15%  Similarity=0.061  Sum_probs=22.3

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----cCChhHHHHHHHHHHh
Q 027412           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EGRMDDATMMFSKMLE   90 (223)
Q Consensus        33 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~   90 (223)
                      |...|...+.+++|.++|++..+.+   ++..+..|...|..    .+++++|.+.|++..+
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~   89 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACG   89 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHc
Confidence            3333333334444444444444332   33333334444443    3444444444444433

>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=98.74  E-value=9.3e-07  Score=55.65  Aligned_cols=113  Identities=18%  Similarity=0.060  Sum_probs=97.0

Q ss_pred             cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh----hCChhH
Q 027412           40 LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKS  115 (223)
Q Consensus        40 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~  115 (223)
                      .+++++|..+|++..+.+ .|+..    |...|...+.+++|.+.|++..+.+   +...+..|...|..    .+++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            357889999999999887 33433    7788878888999999999998875   66788889999988    899999


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCC
Q 027412          116 AFDVYEEMCENNISPNIVSYSILIDGLCK----RGLMEEALYAFHCALDNHL  163 (223)
Q Consensus       116 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~  163 (223)
                      |..+|++..+.|   ++..+..+...|..    .+++++|.++|++..+.|.
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999999876   67788999999998    8999999999999998864

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.72  E-value=2.9e-07  Score=70.15  Aligned_cols=121  Identities=7%  Similarity=-0.025  Sum_probs=53.5

Q ss_pred             hcCchhHHHHHHHHHHhC-----CC-CC-cHHHHHHHHHHHHhcCChhHHHHHHHHHHhc-----CCC-c-cHHHHHHHH
Q 027412           39 SLNRLDEAVQLFEKLTCV-----QL-KP-NSITFTILIDAFCKEGRMDDATMMFSKMLEK-----GPK-A-NVVTYSCLI  104 (223)
Q Consensus        39 ~~~~~~~a~~~~~~~~~~-----~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~-~~~~~~~l~  104 (223)
                      ..|++++|+.++++..+.     |. .| ...+++.|...|...|++++|+.++++.+..     |+. | ...+++.|.
T Consensus       321 ~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  400 (490)
T 3n71_A          321 SEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAG  400 (490)
T ss_dssp             TTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            445555555555544322     10 11 1234555555555555555555555544331     111 1 223445555


Q ss_pred             HHHHhhCChhHHHHHHHHHHHC-----C--CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412          105 DGYFKSQNMKSAFDVYEEMCEN-----N--ISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       105 ~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      ..|...|++++|..++++....     |  -+....+.+.+..++...+.+++|..++.+++
T Consensus       401 ~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~  462 (490)
T 3n71_A          401 LTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMR  462 (490)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555544321     1  01112233344444444555555555555443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.71  E-value=1.1e-07  Score=57.69  Aligned_cols=77  Identities=14%  Similarity=0.114  Sum_probs=36.1

Q ss_pred             HHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHH
Q 027412           46 AVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (223)
Q Consensus        46 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  124 (223)
                      ++..|++..+..+ .+...+..+..++...|++++|+..|++..+..+. +...|..+..++...|++++|...|++..
T Consensus         4 a~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            4 ITERLEAMLAQGT-DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHTTTC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444444443332 23444444555555555555555555555444433 34444444455555555555555554444

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.71  E-value=4.6e-07  Score=52.22  Aligned_cols=61  Identities=28%  Similarity=0.483  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  125 (223)
                      .+..+...+...|++++|...+++..+..+. +...+..+..++...|++++|...+++..+
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            3333444444444444444444444443332 333444444444444444444444444443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.71  E-value=2e-07  Score=71.08  Aligned_cols=126  Identities=13%  Similarity=-0.039  Sum_probs=98.0

Q ss_pred             HHHhcCChhHHHHHHHHHHhc-----CCC-c-cHHHHHHHHHHHHhhCChhHHHHHHHHHHHC-----C--CCCChhHHH
Q 027412           71 AFCKEGRMDDATMMFSKMLEK-----GPK-A-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN-----N--ISPNIVSYS  136 (223)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~-----~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~  136 (223)
                      .+...|++++|+.++++.+..     |+. | ...+++.|..+|...|++++|..++++.+..     |  -+....+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            355789999999999887763     221 1 3568999999999999999999999987642     2  122345789


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHh-----CCCC-CC-HHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          137 ILIDGLCKRGLMEEALYAFHCALD-----NHLL-PD-VVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       137 ~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~-~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      .|...|...|++++|..++++.++     .|.. |+ ..+...+..++...+.+++|..++.++.+.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999998874     3432 22 345577778888999999999999998864

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.70  E-value=3.3e-07  Score=55.01  Aligned_cols=90  Identities=17%  Similarity=0.075  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC------HHHH
Q 027412           97 VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPD------VVTY  170 (223)
Q Consensus        97 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~  170 (223)
                      ...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|.+.+++..+..+. +      ...+
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~   81 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTST-AEHVAIRSKLQ   81 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSS-TTSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ccHHHHHHHHH
Confidence            3445555555555566666666655555543 344555555555666666666666666655554321 1      3344


Q ss_pred             HHHHHHHHhcCCcchHHH
Q 027412          171 AILIRGYCKAGRPTEAMQ  188 (223)
Q Consensus       171 ~~l~~~~~~~g~~~~a~~  188 (223)
                      ..+..++...|+++.|..
T Consensus        82 ~~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           82 YRLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHHhHhhhHh
Confidence            445555555555554443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.69  E-value=1.5e-07  Score=56.48  Aligned_cols=65  Identities=15%  Similarity=0.169  Sum_probs=37.9

Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        61 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      +...+..+...+...|++++|+..|++..+..+. +...+..+..++...|++++|...+++..+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            3444555555666666666666666666555444 4555555666666666666666666666554

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.66  E-value=6e-07  Score=54.44  Aligned_cols=80  Identities=14%  Similarity=0.152  Sum_probs=46.8

Q ss_pred             HHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHH
Q 027412           10 AALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKML   89 (223)
Q Consensus        10 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   89 (223)
                      .|+..|++..+.. +.+...+..+..++...|++++|...|++..+..+ .+...|..+..++...|++++|...|++..
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            3555566655543 22455666666666666666666666666655432 245556666666666666666666666655


Q ss_pred             hc
Q 027412           90 EK   91 (223)
Q Consensus        90 ~~   91 (223)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.65  E-value=2.9e-07  Score=58.72  Aligned_cols=48  Identities=19%  Similarity=0.331  Sum_probs=29.6

Q ss_pred             hhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC-----------ChhHHHHHHHHHHHC
Q 027412           78 MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ-----------NMKSAFDVYEEMCEN  126 (223)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----------~~~~a~~~~~~~~~~  126 (223)
                      +++|+..|++.++.+|. +..+|..+..+|...|           ++++|...|+++.+.
T Consensus        62 ~~eAi~~le~AL~ldP~-~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           62 IQEAITKFEEALLIDPK-KDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            34666666666666555 5556666666666553           666666666666663

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.65  E-value=8.2e-07  Score=51.13  Aligned_cols=83  Identities=19%  Similarity=0.221  Sum_probs=58.8

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIR  175 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  175 (223)
                      +...+..+...+...|++++|...+++..+.. +.+..++..+..++...|++++|...+++..+..+ .+...+..+..
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            45567777777888888888888888877654 45667777777888888888888888887776554 35566666665


Q ss_pred             HHHhc
Q 027412          176 GYCKA  180 (223)
Q Consensus       176 ~~~~~  180 (223)
                      ++...
T Consensus        86 ~~~~~   90 (91)
T 1na3_A           86 AKQKQ   90 (91)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            55443

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.60  E-value=3.4e-07  Score=58.39  Aligned_cols=94  Identities=12%  Similarity=0.075  Sum_probs=69.9

Q ss_pred             hcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCCh----------hHHHHHHHHHHHCCCCCChhHHHHHHHHHH
Q 027412           74 KEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM----------KSAFDVYEEMCENNISPNIVSYSILIDGLC  143 (223)
Q Consensus        74 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  143 (223)
                      +.+.+++|.+.+++..+.+|. +...|..+..++...+++          ++|+..|++.++.+ |.+..+|..+..+|.
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHH
Confidence            345677777777777777766 777777777777777654          58999999998875 567788999999998


Q ss_pred             hcC-----------CHHHHHHHHHHHHhCCCCCCHHHHH
Q 027412          144 KRG-----------LMEEALYAFHCALDNHLLPDVVTYA  171 (223)
Q Consensus       144 ~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~  171 (223)
                      ..|           ++++|++.|++.++.+  |+...|.
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~--P~~~~y~  128 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDEQ--PDNTHYL  128 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHhC--CCCHHHH
Confidence            774           7888888888887765  4444443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.55  E-value=4.9e-05  Score=58.26  Aligned_cols=176  Identities=9%  Similarity=-0.020  Sum_probs=104.2

Q ss_pred             HHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHH-------------------------
Q 027412            9 DAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-------------------------   63 (223)
Q Consensus         9 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------------------------   63 (223)
                      +.+..+|+++.... +.+...|...+..+.+.|+.+.|..++++....  +.+..                         
T Consensus       196 ~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~y~~~~e~~~~~~~l~~~~~~~  272 (493)
T 2uy1_A          196 SRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLYYGLVMDEEAVYGDLKRKYSMG  272 (493)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHTTCTHHHHHHHHHTC--
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHHHHhhcchhHHHHHHHHHHHhh
Confidence            44566777766643 335667777777777777777777777776655  22221                         


Q ss_pred             ---------------HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC-ChhHHHHHHHHHHHCC
Q 027412           64 ---------------TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ-NMKSAFDVYEEMCENN  127 (223)
Q Consensus        64 ---------------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~  127 (223)
                                     +|...+....+.+..+.|..+|++. .. +..+...|...+..-...+ +.+.|..+|+...+.-
T Consensus       273 ~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~  350 (493)
T 2uy1_A          273 EAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH  350 (493)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC
T ss_pred             ccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC
Confidence                           2222333333455667777777776 21 2223344433232222223 5777777777776642


Q ss_pred             CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          128 ISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       128 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                       +.++..+...+....+.|+.+.|..+|+++.     .+...|...+..-...|+.+.+..++++..+
T Consensus       351 -~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          351 -PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             3334455556666667777777777777662     2466677666666667777777777776663

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.39  E-value=4.2e-06  Score=49.37  Aligned_cols=62  Identities=24%  Similarity=0.284  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHH
Q 027412           62 SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (223)
Q Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  124 (223)
                      ...+..+..+|...|++++|+..|++..+.++. +...|..+..+|...|++++|...+++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344444444455555555555555554444433 34444444555555555555555544444

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.38  E-value=2.3e-06  Score=50.53  Aligned_cols=64  Identities=17%  Similarity=0.247  Sum_probs=48.5

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      +...+..+..++...|++++|...|+++.+.+ +.+...|..+..+|...|++++|.+.+++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            56677777788888888888888888877764 55566777788888888888888887777664

>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=98.38  E-value=0.00012  Score=53.29  Aligned_cols=148  Identities=14%  Similarity=0.152  Sum_probs=93.5

Q ss_pred             CCcHHHHHHHHHHHH--hcC---ChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhh---C-C----hhHHHHHHHHHHH
Q 027412           59 KPNSITFTILIDAFC--KEG---RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS---Q-N----MKSAFDVYEEMCE  125 (223)
Q Consensus        59 ~~~~~~~~~l~~~~~--~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~-~----~~~a~~~~~~~~~  125 (223)
                      +.+...|...+++..  ..+   +..+|..+|++..+..|. ....|..+..+|...   + .    .......++....
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~-~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPE-FTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            335555555554433  222   346788888888887665 555555544444311   1 0    1111112221111


Q ss_pred             -CCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhh
Q 027412          126 -NNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLL  204 (223)
Q Consensus       126 -~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  204 (223)
                       ...+.+..++..+...+...|++++|...++++...+  |+...|..+...+...|++++|.+.+++...  +.|...+
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr--L~P~~~t  345 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN--LRPGANT  345 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCSHHH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCcCh
Confidence             1125677788887777777899999999999888876  6777777888888888999999999988888  4777777


Q ss_pred             HHHHhhh
Q 027412          205 LSTLADY  211 (223)
Q Consensus       205 ~~~l~~~  211 (223)
                      |...-..
T Consensus       346 ~~~~~~l  352 (372)
T 3ly7_A          346 LYWIENG  352 (372)
T ss_dssp             HHHHHHS
T ss_pred             HHHHhCc
Confidence            6654443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=98.24  E-value=3.8e-06  Score=49.24  Aligned_cols=56  Identities=18%  Similarity=0.329  Sum_probs=26.9

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCccHH-HHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           70 DAFCKEGRMDDATMMFSKMLEKGPKANVV-TYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      ..+...|++++|...+++..+..+. +.. .+..+..++...|++++|...|++..+.
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3344445555555555555444433 333 4444455555555555555555554443

>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=98.09  E-value=2.1e-05  Score=59.15  Aligned_cols=61  Identities=10%  Similarity=-0.095  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHHC-----C-CCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCEN-----N-ISP-NIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      +++.|..+|...|++++|..++++.+..     | -.| ...+++.+...|..+|++++|..++++.+
T Consensus       342 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          342 MMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            4444555555555555555554444321     1 011 12234444445555555555554444443

>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=98.09  E-value=0.0002  Score=52.21  Aligned_cols=142  Identities=9%  Similarity=0.009  Sum_probs=96.9

Q ss_pred             CcCHHHHHHHHHHHHh--c---CchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh---cC-Ch-hHH---HHHHHHHH-
Q 027412           24 EPDIITYNTIICGYCS--L---NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK---EG-RM-DDA---TMMFSKML-   89 (223)
Q Consensus        24 ~~~~~~~~~l~~~~~~--~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~-~~-~~a---~~~~~~~~-   89 (223)
                      +.+..+|...+++...  .   .+..+|..+|++..+..+. ....+..+..+|..   .+ .. ...   ...++... 
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~-~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPE-FTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            4466777777765443  2   3457899999999987433 34555544444431   11 11 111   11222111 


Q ss_pred             -hcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 027412           90 -EKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVV  168 (223)
Q Consensus        90 -~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  168 (223)
                       ..+ +.+..+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.+++....+  |...
T Consensus       270 ~~~~-~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~--P~~~  344 (372)
T 3ly7_A          270 LPEL-NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR--PGAN  344 (372)
T ss_dssp             CGGG-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CSHH
T ss_pred             cccC-CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCcC
Confidence             122 3477888888888888899999999999999975  787888888999999999999999999998876  4555


Q ss_pred             HHH
Q 027412          169 TYA  171 (223)
Q Consensus       169 ~~~  171 (223)
                      +|.
T Consensus       345 t~~  347 (372)
T 3ly7_A          345 TLY  347 (372)
T ss_dssp             HHH
T ss_pred             hHH
Confidence            654

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.07  E-value=0.00061  Score=52.27  Aligned_cols=123  Identities=14%  Similarity=0.014  Sum_probs=89.6

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhc-CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHH
Q 027412           30 YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE-GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF  108 (223)
Q Consensus        30 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  108 (223)
                      |...+....+.+..+.|..+|++. .. ...+...|......-... ++.+.|..+|+...+..+. ++..|...+....
T Consensus       289 w~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~-~~~~~~~yid~e~  365 (493)
T 2uy1_A          289 RINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPD-STLLKEEFFLFLL  365 (493)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCC-CHHHHHHHHHHHH
Confidence            334444444567889999999999 32 223445554333322223 4799999999999887554 4556777788888


Q ss_pred             hhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412          109 KSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus       109 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      +.|+.+.|..+|+.+.     .....|...+..-...|+.+.+.+++++..+
T Consensus       366 ~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          366 RIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8999999999999872     3577888888888888999999999888763

>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=98.02  E-value=0.00015  Score=54.51  Aligned_cols=88  Identities=10%  Similarity=0.075  Sum_probs=53.7

Q ss_pred             HHhcCChhHHHHHHHHHHhc-----CCC--ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC-----C--CCCChhHHHH
Q 027412           72 FCKEGRMDDATMMFSKMLEK-----GPK--ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN-----N--ISPNIVSYSI  137 (223)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~-----~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~  137 (223)
                      +.+.|++++|+.++++....     |+.  ....+++.++.+|...|++++|+.++++++..     |  -+....+++.
T Consensus       297 ~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~n  376 (429)
T 3qwp_A          297 LKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMK  376 (429)
T ss_dssp             HHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHH
T ss_pred             HHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHH
Confidence            44556777777777666543     111  12346667777777777777777777766532     1  1112345677


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Q 027412          138 LIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       138 l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      +...|...|++++|..++++..
T Consensus       377 La~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          377 VGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Confidence            7777777777777777777665

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.02  E-value=0.00021  Score=41.38  Aligned_cols=65  Identities=14%  Similarity=0.256  Sum_probs=31.2

Q ss_pred             cHHHHHHHHHHHHhcCC---hhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           61 NSITFTILIDAFCKEGR---MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        61 ~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      ++..+..+..++...++   .++|..++++.++.++. ++.....+...+.+.|++++|+..|+++.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34444444444432222   34555555555555444 4444454555555555555555555555543

>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=98.01  E-value=5.1e-05  Score=57.03  Aligned_cols=88  Identities=15%  Similarity=0.112  Sum_probs=68.0

Q ss_pred             HhhCChhHHHHHHHHHHHCC---CCC----ChhHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCC-CCC-HHHHHHH
Q 027412          108 FKSQNMKSAFDVYEEMCENN---ISP----NIVSYSILIDGLCKRGLMEEALYAFHCALD-----NHL-LPD-VVTYAIL  173 (223)
Q Consensus       108 ~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~-~~~-~~~~~~l  173 (223)
                      .+.|++++|..++++.....   +.|    ...+++.++.+|...|++++|+.++++++.     .|. .|+ ..+++.+
T Consensus       298 ~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nL  377 (429)
T 3qwp_A          298 KAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKV  377 (429)
T ss_dssp             HHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHH
T ss_pred             HhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHH
Confidence            35688999999999887531   122    245788999999999999999999998773     232 132 3568899


Q ss_pred             HHHHHhcCCcchHHHHHHHHHH
Q 027412          174 IRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       174 ~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      ...|...|++++|..++++..+
T Consensus       378 a~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          378 GKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Confidence            9999999999999999988774

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=98.00  E-value=7e-05  Score=47.31  Aligned_cols=84  Identities=15%  Similarity=0.046  Sum_probs=51.8

Q ss_pred             hhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC---ChhHHHHHHHHHHHCCCCC--ChhHHHHHHHHHHhcCCHHHHH
Q 027412           78 MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ---NMKSAFDVYEEMCENNISP--NIVSYSILIDGLCKRGLMEEAL  152 (223)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~  152 (223)
                      ...+.+.|.+....++ ++..+...+..++.+++   +.++++.+|+...+.+ .|  ....+..+.-++.+.|++++|.
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            4455555555555554 35666666666777666   4556777777766653 23  3455666666667777777777


Q ss_pred             HHHHHHHhCCC
Q 027412          153 YAFHCALDNHL  163 (223)
Q Consensus       153 ~~~~~~~~~~~  163 (223)
                      +.++.+++..|
T Consensus        92 ~y~~~lL~ieP  102 (152)
T 1pc2_A           92 KYVRGLLQTEP  102 (152)
T ss_dssp             HHHHHHHHHCT
T ss_pred             HHHHHHHhcCC
Confidence            77777766543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=98.00  E-value=0.00016  Score=42.02  Aligned_cols=82  Identities=13%  Similarity=0.197  Sum_probs=59.3

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCcHH-HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC
Q 027412           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ  111 (223)
Q Consensus        33 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  111 (223)
                      ....+...|++++|...+++..+..+. +.. .+..+..++...|++++|...|++..+.++. +...+..        +
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~--------~   75 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPD-SPALQAR--------K   75 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHH--------H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHH--------H
Confidence            456677889999999999998876533 566 8888889999999999999999999888765 4444421        3


Q ss_pred             ChhHHHHHHHHHH
Q 027412          112 NMKSAFDVYEEMC  124 (223)
Q Consensus       112 ~~~~a~~~~~~~~  124 (223)
                      .+.++...+++..
T Consensus        76 ~~~~a~~~~~~~~   88 (99)
T 2kc7_A           76 MVMDILNFYNKDM   88 (99)
T ss_dssp             HHHHHHHHHCCTT
T ss_pred             HHHHHHHHHHHHh
Confidence            4455555554443

>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=98.00  E-value=3.6e-05  Score=57.82  Aligned_cols=87  Identities=8%  Similarity=-0.073  Sum_probs=69.0

Q ss_pred             hcCchhHHHHHHHHHHhC-----CC-CC-cHHHHHHHHHHHHhcCChhHHHHHHHHHHhc-----CCC-c-cHHHHHHHH
Q 027412           39 SLNRLDEAVQLFEKLTCV-----QL-KP-NSITFTILIDAFCKEGRMDDATMMFSKMLEK-----GPK-A-NVVTYSCLI  104 (223)
Q Consensus        39 ~~~~~~~a~~~~~~~~~~-----~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~-~~~~~~~l~  104 (223)
                      ..|++++|+.++++..+.     |. .| ...+++.|..+|...|++++|+.++++.+..     |+. | ...+++.|.
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            357889999999987652     21 12 2467899999999999999999999988753     322 2 345789999


Q ss_pred             HHHHhhCChhHHHHHHHHHHH
Q 027412          105 DGYFKSQNMKSAFDVYEEMCE  125 (223)
Q Consensus       105 ~~~~~~~~~~~a~~~~~~~~~  125 (223)
                      ..|...|++++|..+++++.+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999998874

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.90  E-value=0.00026  Score=41.01  Aligned_cols=67  Identities=10%  Similarity=0.058  Sum_probs=42.4

Q ss_pred             cHHHHHHHHHHHHhhCC---hhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412           96 NVVTYSCLIDGYFKSQN---MKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                      ++..+..+..++...++   .++|..++++....+ +.++.....+...+.+.|++++|+..|+++.+..+
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p   74 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSND   74 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            55566666666554443   566777777766654 55566666666667777777777777777666543

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.89  E-value=0.00077  Score=47.37  Aligned_cols=94  Identities=20%  Similarity=0.179  Sum_probs=73.9

Q ss_pred             hhHHHHHHHHHHHCCCCCC---hhHHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCc
Q 027412          113 MKSAFDVYEEMCENNISPN---IVSYSILIDGLCKR-----GLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKA-GRP  183 (223)
Q Consensus       113 ~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~  183 (223)
                      ...|...+++..+.+  |+   ...|..+...|.+.     |+.++|.+.|++.++.++.-+..++..+...++.. |+.
T Consensus       179 l~~A~a~lerAleLD--P~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDLW--PSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHHC--TTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            457888888888854  44   56888899999884     99999999999999877544577888888888884 999


Q ss_pred             chHHHHHHHHHHCCCC--CchhhHHHH
Q 027412          184 TEAMQLYDSMLRNGIM--PDGLLLSTL  208 (223)
Q Consensus       184 ~~a~~~~~~~~~~~~~--p~~~~~~~l  208 (223)
                      +++.+.+++.+.....  |+....+.+
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            9999999999987655  665544443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.86  E-value=0.00043  Score=40.96  Aligned_cols=69  Identities=14%  Similarity=0.062  Sum_probs=35.0

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCC------CCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ------LKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK   94 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   94 (223)
                      +...+..|...+.+.+++..|..+|+...+..      ..+...++..+..++.+.|+++.|...+++..+..|.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~   78 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE   78 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC
Confidence            33444555555556666666666665554321      1123444555555555555555555555555554433

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.81  E-value=0.00068  Score=40.07  Aligned_cols=66  Identities=11%  Similarity=0.072  Sum_probs=35.6

Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcC------CCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKG------PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        61 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      +..-+..|+..+.+.+++..|...|+...+..      ..+....+..+..++.+.|+++.|...++++.+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            34444556666666666666666665554431      1123445555555555666666666655555543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.80  E-value=0.00067  Score=42.87  Aligned_cols=82  Identities=10%  Similarity=0.098  Sum_probs=43.0

Q ss_pred             hHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcC---ChhHHHHHHHHHHhcC-CCccHHHHHHHHHHHHhhCChhHHHHH
Q 027412           44 DEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG---RMDDATMMFSKMLEKG-PKANVVTYSCLIDGYFKSQNMKSAFDV  119 (223)
Q Consensus        44 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~  119 (223)
                      ..+.+.|.+..+.+. ++..+...+..++++.+   +.++++.+++...+.+ +.-+...+-.+..++.+.|++++|.+.
T Consensus        15 ~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y   93 (152)
T 1pc2_A           15 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKY   93 (152)
T ss_dssp             HHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHH
Confidence            334444444444332 35555555555566555   4446666666665554 211233444455566666666666666


Q ss_pred             HHHHHHC
Q 027412          120 YEEMCEN  126 (223)
Q Consensus       120 ~~~~~~~  126 (223)
                      ++.+.+.
T Consensus        94 ~~~lL~i  100 (152)
T 1pc2_A           94 VRGLLQT  100 (152)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            6666653

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.71  E-value=0.0011  Score=53.90  Aligned_cols=78  Identities=14%  Similarity=0.173  Sum_probs=54.9

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHH
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF  108 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  108 (223)
                      ....++..+.+.|.++.|.++.+.       |..     -.......|+++.|.++.+.+      .+...|..+...+.
T Consensus       631 ~~~~~~~~l~~~~~~~~a~~~~~~-------~~~-----~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al  692 (814)
T 3mkq_A          631 SLTKIARFLEGQEYYEEALNISPD-------QDQ-----KFELALKVGQLTLARDLLTDE------SAEMKWRALGDASL  692 (814)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHCCC-------HHH-----HHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCChHHheecCCC-------cch-----heehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHH
Confidence            346777777778888887765521       111     123345678888888876543      26788888999999


Q ss_pred             hhCChhHHHHHHHHHH
Q 027412          109 KSQNMKSAFDVYEEMC  124 (223)
Q Consensus       109 ~~~~~~~a~~~~~~~~  124 (223)
                      +.++++.|.++|.++.
T Consensus       693 ~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          693 QRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HTTCHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHcc
Confidence            9999999999988764

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.65  E-value=0.0009  Score=47.02  Aligned_cols=63  Identities=11%  Similarity=0.130  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHhc-----CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhh-CChhHHHHHHHHHHHC
Q 027412           64 TFTILIDAFCKE-----GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS-QNMKSAFDVYEEMCEN  126 (223)
Q Consensus        64 ~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~  126 (223)
                      .|..+...|.+.     |+.++|.+.|++.++.++.-+..++......++.. |+.+++.+.+++....
T Consensus       201 A~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a  269 (301)
T 3u64_A          201 VWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAI  269 (301)
T ss_dssp             HHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcC
Confidence            444444444442     45555555555555444432244444444444442 4455555555555443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=97.49  E-value=0.002  Score=39.21  Aligned_cols=82  Identities=15%  Similarity=0.011  Sum_probs=37.3

Q ss_pred             hhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhH---HHHHHHHHHHCCCCC--ChhHHHHHHHHHHhcCCHHHHH
Q 027412           78 MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKS---AFDVYEEMCENNISP--NIVSYSILIDGLCKRGLMEEAL  152 (223)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~  152 (223)
                      ...+.+-|......+. ++..+-..+..++.+..+...   ++.+++.+.+.+ .|  .......+.-++.+.|++++|.
T Consensus        17 l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            3344444444433333 244444445555555544443   555555554432 12  2233444444555555555555


Q ss_pred             HHHHHHHhC
Q 027412          153 YAFHCALDN  161 (223)
Q Consensus       153 ~~~~~~~~~  161 (223)
                      +.++.+++.
T Consensus        95 ~~~~~lL~~  103 (126)
T 1nzn_A           95 KYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            555555543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.48  E-value=0.006  Score=49.52  Aligned_cols=103  Identities=12%  Similarity=0.040  Sum_probs=71.1

Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChh
Q 027412           35 CGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK  114 (223)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  114 (223)
                      ......|+++.|.++.+.+      .+...|..+...+.+.++++.|++.|.++..         |..+...+...++.+
T Consensus       660 ~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~  724 (814)
T 3mkq_A          660 ELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKE  724 (814)
T ss_dssp             HHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHH
T ss_pred             ehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHH
Confidence            3456789999999886543      3778999999999999999999999998732         234555555577777


Q ss_pred             HHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412          115 SAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus       115 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      ....+-+.....|      -++....+|.+.|++++|.+++.++
T Consensus       725 ~~~~~~~~a~~~~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          725 GLVTLAKDAETTG------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcC------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            6666665555543      2233444455666666666666543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.33  E-value=0.013  Score=38.08  Aligned_cols=129  Identities=16%  Similarity=0.149  Sum_probs=92.8

Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChh
Q 027412           35 CGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK  114 (223)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  114 (223)
                      ......|+++.|.++.+.+      .+...|..|.......|+++-|++.|.+..         -+..+.-.|...|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~---------D~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQH---------SFDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT---------CHHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhC---------CHHHHHHHHHHhCCHH
Confidence            3355689999999998775      378899999999999999999999998763         2355666777788888


Q ss_pred             HHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          115 SAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       115 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                      ....+-+.....|      -++.....+...|+++++.++|.+.   |.-|  ..    +......|-.+.|.++.+++
T Consensus        78 ~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~---~r~~--eA----~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           78 KLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG---GSLP--LA----YAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT---TCHH--HH----HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC---CChH--HH----HHHHHHcCcHHHHHHHHHHh
Confidence            8777776666554      3455666677899999999998643   3212  11    11223456677777777665

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.31  E-value=0.014  Score=37.94  Aligned_cols=125  Identities=18%  Similarity=0.152  Sum_probs=79.1

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      +.|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.+...         +..+.-.|.-.|+.+.-.+
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            567888888877654      3677888888888888888888888887752         3445556666777776665


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      +-+.....|      -++.....+...|+++++.++|.+..+   .|.      -.......|..+.|.++.+.+
T Consensus        82 la~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r---~~e------A~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS---LPL------AYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC---HHH------HHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC---hHH------HHHHHHHcCcHHHHHHHHHHh
Confidence            555444433      234455566778888888888754322   111      111122245666677766654

>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=97.26  E-value=0.013  Score=36.79  Aligned_cols=64  Identities=14%  Similarity=0.095  Sum_probs=35.6

Q ss_pred             CChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 027412          111 QNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRG  176 (223)
Q Consensus       111 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  176 (223)
                      ++.++|.++|+.++..+-.. ...|......-.++|++.+|.+++.+.+..+++| ...+...++-
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~-~~~le~a~~n  137 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP-LEMLEIALRN  137 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC-HHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc-HHHHHHHHHh
Confidence            56666666666665432222 5555555555666666666666666666655543 3344444433

>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=97.24  E-value=0.014  Score=36.67  Aligned_cols=51  Identities=16%  Similarity=0.047  Sum_probs=26.4

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCC
Q 027412          146 GLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNG  197 (223)
Q Consensus       146 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  197 (223)
                      ++.++|.++|+.+++.+-.. ...|...++--.+.|+.+.|.+++.+....+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence            45555555555554432222 4445555555555555666666555555543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=97.20  E-value=0.0099  Score=36.20  Aligned_cols=85  Identities=13%  Similarity=0.123  Sum_probs=49.3

Q ss_pred             CchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH---HHHHHHHHHhcC-CCccHHHHHHHHHHHHhhCChhHH
Q 027412           41 NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD---ATMMFSKMLEKG-PKANVVTYSCLIDGYFKSQNMKSA  116 (223)
Q Consensus        41 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a  116 (223)
                      .....+.+-|......+. ++..+-..+..++.+..+...   ++.+++.+.+.+ +.......-.|..++.+.|++++|
T Consensus        15 ~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHH
Confidence            334445555555444342 455555556666666655444   667777766654 211333444466677777777777


Q ss_pred             HHHHHHHHHC
Q 027412          117 FDVYEEMCEN  126 (223)
Q Consensus       117 ~~~~~~~~~~  126 (223)
                      .+.++.+++.
T Consensus        94 ~~~~~~lL~~  103 (126)
T 1nzn_A           94 LKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            7777777764

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=97.08  E-value=0.011  Score=47.58  Aligned_cols=128  Identities=16%  Similarity=0.117  Sum_probs=80.2

Q ss_pred             HHHHHHHHHhcCC-hhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCC-hhHHHHHHHHHHHC------CCCC-C----
Q 027412           65 FTILIDAFCKEGR-MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN-MKSAFDVYEEMCEN------NISP-N----  131 (223)
Q Consensus        65 ~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~------~~~~-~----  131 (223)
                      ...++..+...++ .+.|..+|+++....+..+......++......++ --+|.+++.+..+.      ..++ +    
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            3445555555666 57799999998887654333233333333333332 22355555444321      1111 1    


Q ss_pred             ------hhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          132 ------IVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       132 ------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                            ......=+..+...|+++-|+++-++....-+ -+..+|..|+.+|...|+++.|+-.++.+
T Consensus       331 ~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aP-seF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          331 RLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELAL-DSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             cccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCc-hhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                  11222234556678999999999999887654 46889999999999999999999888876

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.88  E-value=0.021  Score=45.92  Aligned_cols=130  Identities=14%  Similarity=0.069  Sum_probs=84.8

Q ss_pred             HHHHHHHHHHhcCc-hhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCC-hhHHHHHHHHHHhc------C-CCcc---
Q 027412           29 TYNTIICGYCSLNR-LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR-MDDATMMFSKMLEK------G-PKAN---   96 (223)
Q Consensus        29 ~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~------~-~~~~---   96 (223)
                      ....++..+...++ .+.|..+++++....+..+......++..+...++ --+|.+++.+..+.      . ...+   
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            34556666666666 58899999999876432232223333333333332 23455555554321      1 1111   


Q ss_pred             -------HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412           97 -------VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus        97 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                             ......-...+...|+++.|+.+-++..... |.+-.+|..|..+|...|+++.|+-.+..+.
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                   1123333566778999999999999998863 5667899999999999999999999998774

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.59  E-value=0.15  Score=38.56  Aligned_cols=190  Identities=13%  Similarity=0.073  Sum_probs=120.1

Q ss_pred             ccCHHHHHHHHHHHhhC-----CCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHH----HHhc
Q 027412            5 ECHLDAALKLFGQLTDR-----GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDA----FCKE   75 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~----~~~~   75 (223)
                      .|+++.|++.+..+.+.     +..-.......++..|...++|+...+.+..+........ .....+++.    ....
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk-~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLK-LSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSH-HHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhH-HHHHHHHHHHHHHHhcC
Confidence            47788898887666532     2334577788899999999999999888877754432322 222233332    2233


Q ss_pred             CChhHH--HHHHHHHHhc--C-CCc---cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCC-C----hhHHHHHHHHH
Q 027412           76 GRMDDA--TMMFSKMLEK--G-PKA---NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP-N----IVSYSILIDGL  142 (223)
Q Consensus        76 ~~~~~a--~~~~~~~~~~--~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~  142 (223)
                      ...+..  ..+.+.....  | +-.   .......|...+...|++.+|..++..+...-... +    ...+..-++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            333321  2222211111  1 000   12334568889999999999999999886321111 1    34667778889


Q ss_pred             HhcCCHHHHHHHHHHHHh----CCCCCC--HHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          143 CKRGLMEEALYAFHCALD----NHLLPD--VVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      ...+++.+|..++.++..    ....|+  ...+...+..+...++|.+|.+.|.++.+
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            999999999999988642    222232  23556777788888999999888887764

>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=96.56  E-value=0.14  Score=37.93  Aligned_cols=112  Identities=15%  Similarity=0.136  Sum_probs=72.8

Q ss_pred             cHHHHHHHHHHHH---hcCChhHHHHHHHHHHhc--CCC-ccH------------------HHHHHHHHHHHhhCChhHH
Q 027412           61 NSITFTILIDAFC---KEGRMDDATMMFSKMLEK--GPK-ANV------------------VTYSCLIDGYFKSQNMKSA  116 (223)
Q Consensus        61 ~~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~~--~~~-~~~------------------~~~~~l~~~~~~~~~~~~a  116 (223)
                      |...|..++....   ..|+.+.+...+.+....  |.. ++.                  .+...++..+...|+++++
T Consensus       111 D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~~~a  190 (388)
T 2ff4_A          111 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAV  190 (388)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            4445555554332   357888888888877664  211 111                  1223345566677888888


Q ss_pred             HHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHHHHH
Q 027412          117 FDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD-----NHLLPDVVTYAIL  173 (223)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  173 (223)
                      ...+..+.... |.+...+..++.++.+.|+..+|++.|+.+.+     .|+.|+..+-...
T Consensus       191 ~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          191 IAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            88887777664 66777888888888888888888888877653     4777777654433

>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=96.49  E-value=0.018  Score=42.69  Aligned_cols=112  Identities=12%  Similarity=0.101  Sum_probs=81.3

Q ss_pred             cHHHHHHHHHHHH---hhCChhHHHHHHHHHHHC--CCC-CCh------------------hHHHHHHHHHHhcCCHHHH
Q 027412           96 NVVTYSCLIDGYF---KSQNMKSAFDVYEEMCEN--NIS-PNI------------------VSYSILIDGLCKRGLMEEA  151 (223)
Q Consensus        96 ~~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~~--~~~-~~~------------------~~~~~l~~~~~~~~~~~~a  151 (223)
                      |...|..++....   ..|+.+.+...+.++...  |-. ++.                  .+...++..+...|+++++
T Consensus       111 D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~~~a  190 (388)
T 2ff4_A          111 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAV  190 (388)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            4445555554332   357888888888887754  211 111                  1224456677789999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH-----CCCCCchhhHHHH
Q 027412          152 LYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR-----NGIMPDGLLLSTL  208 (223)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~p~~~~~~~l  208 (223)
                      ...+..+....+ .+...+..++.++.+.|+..+|++.|+++.+     .|+.|+..+-...
T Consensus       191 ~~~l~~~~~~~P-~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          191 IAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            999999887766 5888999999999999999999999988764     3999988765443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=96.25  E-value=0.48  Score=40.53  Aligned_cols=166  Identities=13%  Similarity=0.052  Sum_probs=104.2

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC-----------------------CcHHHHHHHHHHHHhcCChhHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK-----------------------PNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------------------~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      ++..--.+..++...|++++|.+.|++... ++.                       .-..-|..++..+.+.+.++.+.
T Consensus       841 ~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi  919 (1139)
T 4fhn_B          841 DPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDAL  919 (1139)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHH
T ss_pred             CcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHH
Confidence            444445677889999999999999987631 110                       01234677888888889999988


Q ss_pred             HHHHHHHhcCCCcc----HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCH----------
Q 027412           83 MMFSKMLEKGPKAN----VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLM----------  148 (223)
Q Consensus        83 ~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------  148 (223)
                      ++-...++...+-+    ...|..+.+.+...|++++|...+-.+....  .-...+..++...+..|..          
T Consensus       920 ~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~--~r~~cLr~LV~~lce~~~~~~L~~lpf~g  997 (1139)
T 4fhn_B          920 EFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTP--LKKSCLLDFVNQLTKQGKINQLLNYSMPT  997 (1139)
T ss_dssp             HHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSS--SCHHHHHHHHHHHHHHCCHHHHHHHTTTS
T ss_pred             HHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHH--HHHHHHHHHHHHHHhCCChhhhhCCCCcc
Confidence            88777665432212    2257888999999999999999988776543  3345666777766655544          


Q ss_pred             --HHHHHHHHHHHh-C-CCCCCHHHHHHHHHHHHhcCCcchHHHH-HHHHH
Q 027412          149 --EEALYAFHCALD-N-HLLPDVVTYAILIRGYCKAGRPTEAMQL-YDSML  194 (223)
Q Consensus       149 --~~a~~~~~~~~~-~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~  194 (223)
                        +++.+++....+ . .+...+.-|..|-.-+...|++..|..+ |+.+.
T Consensus       998 l~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~ 1048 (1139)
T 4fhn_B          998 LRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLS 1048 (1139)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHH
Confidence              344444432211 1 1111122345555556677787766654 44444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.21  E-value=0.099  Score=32.33  Aligned_cols=68  Identities=13%  Similarity=0.015  Sum_probs=48.7

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCC
Q 027412          131 NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIM  199 (223)
Q Consensus       131 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  199 (223)
                      +...+...+.....+|.-|+-.+++..+... ..|++...-.+..+|.+.|+..++.+++.++.+.|++
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            4455666677777788888887777775442 3367777777888888888888888888888877764

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=96.18  E-value=0.38  Score=41.12  Aligned_cols=146  Identities=12%  Similarity=0.090  Sum_probs=97.7

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc----C---------------
Q 027412           32 TIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK----G---------------   92 (223)
Q Consensus        32 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~---------------   92 (223)
                      .++..+...+..+.+.++....     +.++.....++.++...|++++|.+.|.+....    +               
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            4555666677777766654433     224444566888899999999999999764211    0               


Q ss_pred             ---CCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCCh----hHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 027412           93 ---PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI----VSYSILIDGLCKRGLMEEALYAFHCALDNHLLP  165 (223)
Q Consensus        93 ---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  165 (223)
                         ...-..-|..++..+.+.+.++.+.++-+.+++..-+.+.    ..|..+...+...|++++|...+-.+.+...+ 
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r-  970 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK-  970 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC-
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH-
Confidence               0001234677888888889999988888777654322222    25778889999999999999988877765443 


Q ss_pred             CHHHHHHHHHHHHhcCCcc
Q 027412          166 DVVTYAILIRGYCKAGRPT  184 (223)
Q Consensus       166 ~~~~~~~l~~~~~~~g~~~  184 (223)
                       ......++..++..|..+
T Consensus       971 -~~cLr~LV~~lce~~~~~  988 (1139)
T 4fhn_B          971 -KSCLLDFVNQLTKQGKIN  988 (1139)
T ss_dssp             -HHHHHHHHHHHHHHCCHH
T ss_pred             -HHHHHHHHHHHHhCCChh
Confidence             455666777666665543

>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=95.73  E-value=0.13  Score=29.79  Aligned_cols=44  Identities=5%  Similarity=-0.011  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412          116 AFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       116 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      ..+-++.+...++-|++.+..+.+.+|.+.+++..|.++++-.+
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK   72 (109)
T 1v54_E           29 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   72 (109)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            34444444444444555555555555555555555555544443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.55  E-value=0.21  Score=30.91  Aligned_cols=83  Identities=8%  Similarity=-0.086  Sum_probs=62.4

Q ss_pred             cCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHH
Q 027412           75 EGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYA  154 (223)
Q Consensus        75 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  154 (223)
                      +|+.......+-.+     ..+.......+......|.-++-.+++..+... .+|++...-.+..+|.+.|+..++.++
T Consensus        74 C~NlKrVi~C~~~~-----n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eL  147 (172)
T 1wy6_A           74 CQNLKSVVECGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTL  147 (172)
T ss_dssp             CSCTHHHHHHHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhcHHHHHHHHHHh-----cchHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHH
Confidence            45555555544332     125566777788888899999988888886554 378888899999999999999999999


Q ss_pred             HHHHHhCCC
Q 027412          155 FHCALDNHL  163 (223)
Q Consensus       155 ~~~~~~~~~  163 (223)
                      +.++-+.|.
T Consensus       148 l~~AC~kG~  156 (172)
T 1wy6_A          148 LIEACKKGE  156 (172)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHhhh
Confidence            999988886

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.46  E-value=0.57  Score=35.26  Aligned_cols=97  Identities=13%  Similarity=-0.003  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhc--CCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCC-CCCChhHHH----
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEK--GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN-ISPNIVSYS----  136 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~----  136 (223)
                      +...+...|.+.|+++.|.+.+.++...  +...-...+-..++.+...+++..+...+.++...- -.++....+    
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            4566888889999999999999988875  233345677778888999999999999888876321 112222221    


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHh
Q 027412          137 ILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus       137 ~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      .-+..+...+++..|...|-+...
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            112223456888888888777654

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=95.29  E-value=0.26  Score=30.25  Aligned_cols=69  Identities=14%  Similarity=0.109  Sum_probs=35.9

Q ss_pred             CccHHHHHHHHHHHHhhCCh---hHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           94 KANVVTYSCLIDGYFKSQNM---KSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        94 ~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      .|+..+--.+..++.++.+.   .+++.+++.+.+.+.......+..+.-++.+.|+++.|.+..+.+++..
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~e  108 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  108 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhC
Confidence            34444444455555554433   3455556555554311224445555556666666666666666665543

>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=95.13  E-value=0.3  Score=30.05  Aligned_cols=44  Identities=9%  Similarity=0.149  Sum_probs=22.8

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 027412          151 ALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSML  194 (223)
Q Consensus       151 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  194 (223)
                      ..+-++.+...+..|++......+++|.+.+++..|.++++-..
T Consensus        72 lrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK  115 (152)
T 2y69_E           72 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK  115 (152)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33444444444555555555555555555555555555555444

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.99  E-value=0.75  Score=38.24  Aligned_cols=123  Identities=13%  Similarity=0.049  Sum_probs=52.9

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHH--HHHHHHHHhcC
Q 027412           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSY--SILIDGLCKRG  146 (223)
Q Consensus        69 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~  146 (223)
                      ...+...|+.+....++..+.+.... +..-...+.-++...|+.+.+..+++.+.... .|....-  ..+..+|+..|
T Consensus       497 Gli~vGTgn~~ai~~LL~~~~e~~~e-~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTG  574 (963)
T 4ady_A          497 GLCMLGTGKPEAIHDMFTYSQETQHG-NITRGLAVGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTG  574 (963)
T ss_dssp             HHHHTTCCCHHHHHHHHHHHHHCSCH-HHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSC
T ss_pred             hhhhcccCCHHHHHHHHHHHhccCcH-HHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCC
Confidence            33344555555555555554432111 22222223333345566666666666655431 2222111  12333455556


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHH
Q 027412          147 LMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSML  194 (223)
Q Consensus       147 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  194 (223)
                      +.....+++..+.+.. ..+..-...+.-+++..|+.+.+.+++..+.
T Consensus       575 n~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~  621 (963)
T 4ady_A          575 NNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLS  621 (963)
T ss_dssp             CHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGG
T ss_pred             CHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHH
Confidence            6555555555554431 1223333333333344455544444444333

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.80  E-value=0.4  Score=29.84  Aligned_cols=68  Identities=15%  Similarity=0.111  Sum_probs=34.9

Q ss_pred             ccHHHHHHHHHHHHhhCCh---hHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           95 ANVVTYSCLIDGYFKSQNM---KSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        95 ~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      |+..+-..+..++.++.+.   .+++.+++.+.+.+..........+.-++.+.|++++|.+..+.+++..
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~e  107 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  107 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTC
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            4444444455555554433   3455555555553311233344455555666666666666666665544

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.59  E-value=0.51  Score=30.20  Aligned_cols=56  Identities=13%  Similarity=0.208  Sum_probs=26.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcC-CCcc-------HHHHHHHHHHHHhhCChhHHHHHHHHHH
Q 027412           69 IDAFCKEGRMDDATMMFSKMLEKG-PKAN-------VVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (223)
Q Consensus        69 ~~~~~~~~~~~~a~~~~~~~~~~~-~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~  124 (223)
                      +..+...|.++.|+-+.+.+.... .+|+       ..++..+..++...+++..|...|++.+
T Consensus        27 ik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           27 VRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            344445555555555544433321 1111       1234445555556666666666665543

>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=94.31  E-value=0.51  Score=28.97  Aligned_cols=69  Identities=9%  Similarity=-0.002  Sum_probs=43.0

Q ss_pred             CCCcHHHHHHHHHHHHhcCC---hhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           58 LKPNSITFTILIDAFCKEGR---MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        58 ~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      ..|++.+--.+.-++.+..+   ..+++.+++.+.+.++......+-.|..++.+.|++++|.+..+.+.+.
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            34555555555555655544   3456677777766654333445555667777777777777777777764

>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=94.27  E-value=0.41  Score=27.78  Aligned_cols=50  Identities=14%  Similarity=0.106  Sum_probs=33.3

Q ss_pred             chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 027412           42 RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (223)
Q Consensus        42 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   91 (223)
                      +.-+..+-++.+......|++.+....+++|.+.+++..|.++|+-++.+
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34455566666666666677777777777777777777777777766555

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.14  E-value=2.2  Score=35.64  Aligned_cols=171  Identities=12%  Similarity=0.067  Sum_probs=102.3

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHH--HHHHHHHHh
Q 027412           32 TIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTY--SCLIDGYFK  109 (223)
Q Consensus        32 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~  109 (223)
                      .|..++...|+-+....++..+.+.. .-+..-.-.+.-++...|+.+.+..+++.+... ..|....-  ..+.-+|+.
T Consensus       495 ALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~-~dp~vRygaa~alglAyaG  572 (963)
T 4ady_A          495 GMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQELADDLITKMLAS-DESLLRYGGAFTIALAYAG  572 (963)
T ss_dssp             HHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTT
T ss_pred             HHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcC
Confidence            33444556778777778877776532 212222333444455678999998888887763 33333322  234556778


Q ss_pred             hCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCc-chHHH
Q 027412          110 SQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRP-TEAMQ  188 (223)
Q Consensus       110 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~  188 (223)
                      .|+.....+++..+.... ..+......+.-++...|+.+.+.++++.+.+.+ .|...--..+..+....|.. .++..
T Consensus       573 TGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid  650 (963)
T 4ady_A          573 TGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAID  650 (963)
T ss_dssp             SCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHH
T ss_pred             CCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHH
Confidence            899888888998887642 3334433444445555677777777777666543 35555445555555555554 46788


Q ss_pred             HHHHHHHCCCCCchhhHHHHh
Q 027412          189 LYDSMLRNGIMPDGLLLSTLA  209 (223)
Q Consensus       189 ~~~~~~~~~~~p~~~~~~~l~  209 (223)
                      ++..+..   .+|..+-..-+
T Consensus       651 ~L~~L~~---D~d~~Vrq~Ai  668 (963)
T 4ady_A          651 VLDPLTK---DPVDFVRQAAM  668 (963)
T ss_dssp             HHHHHHT---CSSHHHHHHHH
T ss_pred             HHHHHcc---CCCHHHHHHHH
Confidence            8888865   44544443333

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.12  E-value=1.2  Score=33.59  Aligned_cols=97  Identities=8%  Similarity=-0.075  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCC--CCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc---CCCccHHH--HH
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQ--LKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK---GPKANVVT--YS  101 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~~  101 (223)
                      +...+...|.+.|+++.|.+.+.++....  ...-...+-.+++.+...+++..+...+.+....   +..|+...  ..
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            56788899999999999999999997642  3334567888899999999999999999887653   33333221  11


Q ss_pred             HHHHHHHhhCChhHHHHHHHHHHH
Q 027412          102 CLIDGYFKSQNMKSAFDVYEEMCE  125 (223)
Q Consensus       102 ~l~~~~~~~~~~~~a~~~~~~~~~  125 (223)
                      .-+..+...+++..|...|-+...
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            223344567899998888877654

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=94.07  E-value=0.24  Score=34.44  Aligned_cols=53  Identities=17%  Similarity=0.165  Sum_probs=35.3

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV   56 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   56 (223)
                      .+.|++++|++....-++.. +-|...-..++..+|-.|+|++|..-++...+.
T Consensus         8 l~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            8 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            45677777777776666554 335666667777777777777777777666555

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=93.78  E-value=0.77  Score=32.00  Aligned_cols=115  Identities=12%  Similarity=0.064  Sum_probs=69.3

Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCcc--HHHHHHHHHHHHhhCC
Q 027412           35 CGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN--VVTYSCLIDGYFKSQN  112 (223)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~  112 (223)
                      ....+.|++++++.....-++..+. |...-..++..+|-.|++++|.+-++...+..+...  ...|..++.+-.    
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~P~-da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~aE~----   79 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQ----   79 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHH----
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHHHH----
Confidence            3456678888888888877776533 777777888888888999988888888877655422  223444443311    


Q ss_pred             hhHHHHHHHHHHHCCCC-----CChhHHHHHHHHHH--hcCCHHHHHHHHHHHHh
Q 027412          113 MKSAFDVYEEMCENNIS-----PNIVSYSILIDGLC--KRGLMEEALYAFHCALD  160 (223)
Q Consensus       113 ~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~  160 (223)
                            .=.+...-+-.     ....-...++.+..  ..|+.++|.++-..+.+
T Consensus        80 ------~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e  128 (273)
T 1zbp_A           80 ------ARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  128 (273)
T ss_dssp             ------HHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ------HHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Confidence                  11122221111     12223444444443  35788888777776654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.77  E-value=0.8  Score=29.32  Aligned_cols=96  Identities=11%  Similarity=0.074  Sum_probs=67.5

Q ss_pred             HHHHHHHHHHHhhCChhHHHHHHHHHHHCC-CCCC-------hhHHHHHHHHHHhcCCHHHHHHHHHHHHhC------C-
Q 027412           98 VTYSCLIDGYFKSQNMKSAFDVYEEMCENN-ISPN-------IVSYSILIDGLCKRGLMEEALYAFHCALDN------H-  162 (223)
Q Consensus        98 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-  162 (223)
                      .++..-+..+...+.++.|+-+...+.... ..|+       ..++..+.+++...+++..|...|++.++.      . 
T Consensus        21 ~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~  100 (167)
T 3ffl_A           21 MNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTS  100 (167)
T ss_dssp             CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC----
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCC
Confidence            344555777888899999888887765321 1233       136778889999999999999999986421      0 


Q ss_pred             -----------------CCCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          163 -----------------LLPDVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       163 -----------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                                       ...+.+.---+..+|.+.+++++|+.+++.+
T Consensus       101 s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          101 KVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             ----------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             CccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence                             0011234445888999999999999987654

>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=93.47  E-value=1.7  Score=32.26  Aligned_cols=166  Identities=10%  Similarity=-0.021  Sum_probs=101.5

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhCC-CCC---cHHHHHHHHHHHHhcC-ChhHHHHHHHHHHhcCCCccHHHH--
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-LKP---NSITFTILIDAFCKEG-RMDDATMMFSKMLEKGPKANVVTY--  100 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~---~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~--  100 (223)
                      .....|...|.+.|+.++..+++......= .-|   .......++..+.... ..+.-.++..+..+.... .-.+|  
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            456778888999999999888888764321 111   2334567777776643 334444444433321111 11222  


Q ss_pred             ----HHHHHHHHhhCChhHHHHHHHHHHHCCCCCC-----hhHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHHH
Q 027412          101 ----SCLIDGYFKSQNMKSAFDVYEEMCENNISPN-----IVSYSILIDGLCKRGLMEEALYAFHCALDN--HLLPDVVT  169 (223)
Q Consensus       101 ----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~  169 (223)
                          .-++..|...|++.+|..++..+.+.=-..|     ..++..-+..|...+++.++...+......  .+.+++..
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i  178 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKV  178 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHH
Confidence                2578889999999999888888875311111     234566677788899999999888877532  22233332


Q ss_pred             HH----HHHHHHH-hcCCcchHHHHHHHHH
Q 027412          170 YA----ILIRGYC-KAGRPTEAMQLYDSML  194 (223)
Q Consensus       170 ~~----~l~~~~~-~~g~~~~a~~~~~~~~  194 (223)
                      ..    .-...+. ..++|.+|...|-+..
T Consensus       179 ~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          179 QGALDLQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHhccCHHHHHHHHHHHH
Confidence            21    1222345 7888999888887764

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.30  E-value=4.2e-06  Score=62.63  Aligned_cols=115  Identities=11%  Similarity=0.127  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (223)
                      +.+|..|..+..+.+.+.+|++-|-+..      |+..|..++....+.|.+++-++++.-.++...  ++..=+.|+.+
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyIkA~------Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~a  125 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYIKAD------DPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFA  125 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSCCCS------CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHHhCC------ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHH
Confidence            4456777777777776666665543321      444466677777777777777777664444322  33444567777


Q ss_pred             HHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHH
Q 027412          107 YFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFH  156 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  156 (223)
                      |++.++..+..+++       -.|+..-...+..-|...|.++.|.-+|.
T Consensus       126 yAk~~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys  168 (624)
T 3lvg_A          126 LAKTNRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYN  168 (624)
T ss_dssp             HHTSCSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGG
T ss_pred             HHhhCcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHH
Confidence            77777766544333       13555555666666666666666665554

>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=93.08  E-value=0.92  Score=27.94  Aligned_cols=64  Identities=9%  Similarity=0.098  Sum_probs=41.2

Q ss_pred             ChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 027412           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDG  141 (223)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  141 (223)
                      |..+..+-++.+...+..|++......+++|-+.+|+..|.++|+-.+.+ ..+...+|..+++-
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lqE  131 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE  131 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHHH
Confidence            34455556666666666777777777777777777777777777776644 23445556655544

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=91.40  E-value=1.6  Score=27.11  Aligned_cols=68  Identities=9%  Similarity=0.009  Sum_probs=42.1

Q ss_pred             CCcHHHHHHHHHHHHhcCC---hhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           59 KPNSITFTILIDAFCKEGR---MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        59 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      .|+..+--...-++.+..+   ..+++.+++.+.+.++.......-.|..++.+.|++++|.++.+.+.+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            4555555555556665544   3456667777666555434444445666777777777777777777774

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=91.30  E-value=1.3  Score=25.66  Aligned_cols=79  Identities=14%  Similarity=0.096  Sum_probs=43.7

Q ss_pred             CchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHH
Q 027412           41 NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY  120 (223)
Q Consensus        41 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  120 (223)
                      ...++|..+-+.+...+.  ...+--.-+..+.+.|++++|..+.+..    +.||...|..|.  -.+.|..+++...+
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            355666666666655432  2212122233455667777776665544    456666665543  34666666666666


Q ss_pred             HHHHHCC
Q 027412          121 EEMCENN  127 (223)
Q Consensus       121 ~~~~~~~  127 (223)
                      ..+...|
T Consensus        92 ~~la~sg   98 (115)
T 2uwj_G           92 AGLGGSS   98 (115)
T ss_dssp             HHHHTCS
T ss_pred             HHHHhCC
Confidence            6666555

>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=91.11  E-value=1.4  Score=25.59  Aligned_cols=79  Identities=11%  Similarity=0.060  Sum_probs=44.3

Q ss_pred             CchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHH
Q 027412           41 NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY  120 (223)
Q Consensus        41 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  120 (223)
                      ...++|..+-+.+...+.  ...+--.-+..+.+.|++++|..+.+..    +.||...|..|.  -.+.|..+++...+
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALc--e~rlGl~s~le~rL   92 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKL----AYPDLEPWLALC--EYRLGLGSALESRL   92 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTS----CCGGGHHHHHHH--HHHHTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHH--HHhcccHHHHHHHH
Confidence            356666666666655432  2222222233455677777777666554    456666665553  34566666666666


Q ss_pred             HHHHHCC
Q 027412          121 EEMCENN  127 (223)
Q Consensus       121 ~~~~~~~  127 (223)
                      ..+...|
T Consensus        93 ~~la~sg   99 (116)
T 2p58_C           93 NRLARSQ   99 (116)
T ss_dssp             HHHTTCC
T ss_pred             HHHHhCC
Confidence            6666555

>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=91.02  E-value=2.3  Score=28.17  Aligned_cols=57  Identities=16%  Similarity=0.172  Sum_probs=42.3

Q ss_pred             CChhHHHHHHHHHHHCCCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 027412          111 QNMKSAFDVYEEMCENNISPN-IVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDV  167 (223)
Q Consensus       111 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  167 (223)
                      +....+..+|..|...|+-.. ...|......+-..|++.+|.++|+..++.+-.|-.
T Consensus        93 ~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~~  150 (202)
T 3esl_A           93 NNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPYN  150 (202)
T ss_dssp             TCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHH
T ss_pred             cccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccHH
Confidence            335688888888887765443 456777778888888888888888888887766643

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=87.89  E-value=6.1  Score=28.62  Aligned_cols=189  Identities=9%  Similarity=0.004  Sum_probs=103.4

Q ss_pred             cCHHHHHHHHHHHhhCCCC---c-CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            6 CHLDAALKLFGQLTDRGLE---P-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         6 g~~~~A~~~~~~~~~~~~~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+++.+.-++.-++.|--   - -...|.++..-|.+.+++++|++++.               .-...+.+.|+...+
T Consensus        10 ~~~~~~i~rl~~~I~~G~y~~~YEAHQ~~RTi~~Ry~~~k~y~eAidLL~---------------~GA~~ll~~~Q~~sg   74 (336)
T 3lpz_A           10 NKIERIIARLQRRIAEGQPEEQYEAAQETRLVAARYSKQGNWAAAVDILA---------------SVSQTLLRSGQGGSG   74 (336)
T ss_dssp             CHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH---------------HHHHHHHHTTCHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCCccccHHHHHHHHHHHHHHhhcCHHHHHHHHH---------------HHHHHHHHCCCcchH
Confidence            4455555556555555421   1 13456666666667777777665531               234455566776655


Q ss_pred             HHH----HHHHHhcCCCccHHHHHHHHHHHHhhCChh-HHHHHHHHHH----HCC--CCCChhHHHHHHHHHHhcCCHHH
Q 027412           82 TMM----FSKMLEKGPKANVVTYSCLIDGYFKSQNMK-SAFDVYEEMC----ENN--ISPNIVSYSILIDGLCKRGLMEE  150 (223)
Q Consensus        82 ~~~----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~----~~~--~~~~~~~~~~l~~~~~~~~~~~~  150 (223)
                      -++    ++-..+.+.+++......++..+.....-+ .=..+++.++    +.|  -.-|+.....+...|.+.+++.+
T Consensus        75 ~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~  154 (336)
T 3lpz_A           75 GDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEA  154 (336)
T ss_dssp             HHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHH
Confidence            544    455566678888888888888777655322 1122333332    212  23467778888899999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHH-HCCCCCchhhHHHHhhhHh
Q 027412          151 ALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSML-RNGIMPDGLLLSTLADYNL  213 (223)
Q Consensus       151 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~p~~~~~~~l~~~~~  213 (223)
                      |...|-    .+-.++...+..++.-+...+...++--++-+.+ ..=..-+....+.++..|.
T Consensus       155 Ae~H~i----lg~~~s~~~~a~mL~ew~~~~~~~e~dlfiaRaVL~yL~l~n~~~A~~~~~~f~  214 (336)
T 3lpz_A          155 AEKHLV----LGTKESPEVLARMEYEWYKQDESHTAPLYCARAVLPYLLVANVRAANTAYRIFT  214 (336)
T ss_dssp             HHHHHT----TSCTTHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHH----hcCCchHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            888772    2333454666544444444444443332222222 1111234455555555444

>3kae_A CDC27, possible protein of nuclear scaffold; tetratricopeptide repeat protein, protein binding; 2.30A {Encephalitozoon cuniculi}

Probab=86.61  E-value=4.8  Score=26.10  Aligned_cols=28  Identities=14%  Similarity=0.138  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEK   91 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~   91 (223)
                      .++.+...+.+.|+.++|+..+..--..
T Consensus       116 Fy~l~a~lltq~g~r~EaI~y~~~Sf~~  143 (242)
T 3kae_A          116 FESLLGDLCTLSGYREEGIGHYVRSFGK  143 (242)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHhhhHhhhhcCC
Confidence            4455556666667777777666554443

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=86.11  E-value=5.4  Score=26.20  Aligned_cols=183  Identities=10%  Similarity=0.009  Sum_probs=111.8

Q ss_pred             HHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 027412           11 ALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLE   90 (223)
Q Consensus        11 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   90 (223)
                      ++..+-....   .++...-...+..+.+.+..+. ...+..+..   .++..+-...+.++.+.++.+ +...+..+..
T Consensus        20 ~~~~L~~~L~---~~~~~vR~~A~~~L~~~~~~~~-~~~L~~~l~---~~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~   91 (211)
T 3ltm_A           20 KVEMYIKNLQ---DDSYYVRRAAAYALGKIGDERA-VEPLIKALK---DEDAWVRRAAADALGQIGDER-AVEPLIKALK   91 (211)
T ss_dssp             GHHHHHHHTT---CSSHHHHHHHHHHHHHHCCGGG-HHHHHHHTT---CSCHHHHHHHHHHHHHHCCGG-GHHHHHHHTT
T ss_pred             HHHHHHHHHc---CCCHHHHHHHHHHHHHhCCccH-HHHHHHHHc---CCCHHHHHHHHHHHHhhCCHH-HHHHHHHHHc
Confidence            3444444443   3567777777788888777444 444444443   346666667777777777654 3444444443


Q ss_pred             cCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 027412           91 KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTY  170 (223)
Q Consensus        91 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  170 (223)
                         .++...-...+.++.+.++.+ +...+..+..   .++..+-...+.++.+.|+.+ +...+..+.+.   ++..+-
T Consensus        92 ---~~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~---d~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~d---~~~~vr  160 (211)
T 3ltm_A           92 ---DEDGWVRQSAAVALGQIGDER-AVEPLIKALK---DEDWFVRIAAAFALGEIGDER-AVEPLIKALKD---EDGWVR  160 (211)
T ss_dssp             ---CSSHHHHHHHHHHHHHHCCGG-GHHHHHHHTT---CSSHHHHHHHHHHHHHHCCGG-GHHHHHHHTTC---SSHHHH
T ss_pred             ---CCCHHHHHHHHHHHHHhCcHH-HHHHHHHHHh---CCCHHHHHHHHHHHHHcCCHH-HHHHHHHHHcC---CCHHHH
Confidence               245566666777777777754 4444445543   467777788888888888754 45555555542   577777


Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhcC
Q 027412          171 AILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSS  216 (223)
Q Consensus       171 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  216 (223)
                      ...+.++.+.+. .++...+.++.+   .++..+-...+.++.+.+
T Consensus       161 ~~a~~aL~~~~~-~~~~~~L~~~l~---d~~~~vr~~A~~aL~~~~  202 (211)
T 3ltm_A          161 QSAADALGEIGG-ERVRAAMEKLAE---TGTGFARKVAVNYLETHK  202 (211)
T ss_dssp             HHHHHHHHHHCS-HHHHHHHHHHHH---HCCHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHhCc-hhHHHHHHHHHh---CCCHHHHHHHHHHHHhcC
Confidence            778888888876 556677777766   345555555555554443

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=85.41  E-value=8.6  Score=27.87  Aligned_cols=174  Identities=9%  Similarity=-0.030  Sum_probs=101.0

Q ss_pred             ccccCH---HHHHHHHHHHhhCCC---CcC--HHHHHHHHHHHHhcCchhHHHHHH----HHHHhCCCCCcHHHHHHHHH
Q 027412            3 IKECHL---DAALKLFGQLTDRGL---EPD--IITYNTIICGYCSLNRLDEAVQLF----EKLTCVQLKPNSITFTILID   70 (223)
Q Consensus         3 ~~~g~~---~~A~~~~~~~~~~~~---~~~--~~~~~~l~~~~~~~~~~~~a~~~~----~~~~~~~~~~~~~~~~~l~~   70 (223)
                      +..|++   =+|.+.++.+..+-+   +.+  ......-...+.+.|+...+.++.    +-..+.++++|......++.
T Consensus        23 I~~G~y~~~YEAHQ~~RTi~~Ry~~~k~y~eAidLL~~GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~  102 (336)
T 3lpz_A           23 IAEGQPEEQYEAAQETRLVAARYSKQGNWAAAVDILASVSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLG  102 (336)
T ss_dssp             HHHCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHH
T ss_pred             HhCCCCccccHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            356788   667777665433211   111  223334445677788887766655    45556678889988888888


Q ss_pred             HHHhcCChh-HHHHHHHHHH----hcC--CCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHH
Q 027412           71 AFCKEGRMD-DATMMFSKML----EKG--PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLC  143 (223)
Q Consensus        71 ~~~~~~~~~-~a~~~~~~~~----~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  143 (223)
                      .+.....-+ .=..++++++    +.|  +.-++.....+...|.+.+++.+|...|-    .|-.++...+..++.-+.
T Consensus       103 L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i----lg~~~s~~~~a~mL~ew~  178 (336)
T 3lpz_A          103 CLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV----LGTKESPEVLARMEYEWY  178 (336)
T ss_dssp             HHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT----TSCTTHHHHHHHHHHHHH
T ss_pred             HHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH----hcCCchHHHHHHHHHHHH
Confidence            887655322 1123333332    222  33467788889999999999999888872    232333456655554444


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          144 KRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       144 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      ..+...+              ++...-. .+--|.-.++...|..+++...+
T Consensus       179 ~~~~~~e--------------~dlfiaR-aVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          179 KQDESHT--------------APLYCAR-AVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             HTSCGGG--------------HHHHHHH-HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhcCCcc--------------HHHHHHH-HHHHHHHhCCHHHHHHHHHHHHH
Confidence            4332111              1222222 23345666888888887766654

>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=85.35  E-value=5.2  Score=25.23  Aligned_cols=51  Identities=12%  Similarity=0.070  Sum_probs=25.8

Q ss_pred             HHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc
Q 027412          151 ALYAFHCALDNHLLP-DVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD  201 (223)
Q Consensus       151 a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~  201 (223)
                      +..+|..|...++-- -...|...+..+...|++++|.++|+.-++.+-.|-
T Consensus        84 p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P~  135 (152)
T 4a1g_A           84 LHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQAEPR  135 (152)
T ss_dssp             HHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            445555555444321 233445555555555555555555555555554443

>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=85.32  E-value=6.3  Score=26.18  Aligned_cols=73  Identities=19%  Similarity=0.129  Sum_probs=53.5

Q ss_pred             CCcHHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCc-cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC
Q 027412           59 KPNSITFTILIDAFCK--EGRMDDATMMFSKMLEKGPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN  131 (223)
Q Consensus        59 ~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  131 (223)
                      ..|+......+...-.  .+...++..+|..|...++.. -...|......+...|++++|..+|+..++.+-.|-
T Consensus        74 kND~RYLklWl~Ya~~~~~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~  149 (202)
T 3esl_A           74 RNDPRFLKIWIWYINLFLSNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPY  149 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             cCCHHHHHHHHHHHHhhcccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            4455544333332222  445779999999999886543 456788888999999999999999999998876774

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=83.87  E-value=11  Score=27.98  Aligned_cols=158  Identities=11%  Similarity=-0.046  Sum_probs=86.4

Q ss_pred             cccccCHHHHHHHHHHHhhC-CCC---cCHHHHHHHHHHHHhcC-chhHHHHHHHHH----HhCCCC-CcHHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDR-GLE---PDIITYNTIICGYCSLN-RLDEAVQLFEKL----TCVQLK-PNSITFTILIDA   71 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~-~~~---~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~----~~~~~~-~~~~~~~~l~~~   71 (223)
                      |.+.|+.++..+++.....- +.-   ........++..+.... ..+.-.++..+.    ...... .....-..++..
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~~l~~kL~~l  108 (394)
T 3txn_A           29 YKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQSLEARLIAL  108 (394)
T ss_dssp             HHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45567777777777665432 101   12334566666666533 233333333333    222100 011122357788


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCC-----ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC--CCCCChhHHH----HHHH
Q 027412           72 FCKEGRMDDATMMFSKMLEKGPK-----ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN--NISPNIVSYS----ILID  140 (223)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~----~l~~  140 (223)
                      |...|++.+|.+++.++.+.-..     .-...+..-+..|...+++.++...+......  .+.+++.+..    .-+.
T Consensus       109 ~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~~~~Gi  188 (394)
T 3txn_A          109 YFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALDLQSGI  188 (394)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHHHHhhH
Confidence            88888888888888877664111     12344566677788888888888888777532  2223333221    2233


Q ss_pred             HHH-hcCCHHHHHHHHHHHH
Q 027412          141 GLC-KRGLMEEALYAFHCAL  159 (223)
Q Consensus       141 ~~~-~~~~~~~a~~~~~~~~  159 (223)
                      .+. ..++|..|...|-+..
T Consensus       189 ~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          189 LHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHH
Confidence            345 6788888877776654

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=83.40  E-value=0.0037  Score=47.38  Aligned_cols=87  Identities=17%  Similarity=0.161  Sum_probs=54.5

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (223)
                      |+..|..++....+.|.+++-+.++...++..-  ++..=+.|+-+|++.++..+-++++.       .||..-...+..
T Consensus        82 Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VGD  152 (624)
T 3lvg_A           82 DPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGD  152 (624)
T ss_dssp             CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHHH
Confidence            455688888888899999998888876665432  33444568888888888766444331       234434444555


Q ss_pred             HHHhhCChhHHHHHHH
Q 027412          106 GYFKSQNMKSAFDVYE  121 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~  121 (223)
                      -|...|.++.|.-+|.
T Consensus       153 rcf~e~lYeAAKilys  168 (624)
T 3lvg_A          153 RCYDEKMYDAAKLLYN  168 (624)
T ss_dssp             HHHHSCCSTTSSTTGG
T ss_pred             HHHHccCHHHHHHHHH
Confidence            5555555555544443

>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=83.13  E-value=12  Score=27.52  Aligned_cols=69  Identities=13%  Similarity=0.148  Sum_probs=42.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC--cchHHHHHHHHHHCCCCCchh
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR--PTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~a~~~~~~~~~~~~~p~~~  203 (223)
                      ....++.-|...|+.++|.+.++++....+ ....+...+..++-+.++  .+...+++..+.+.|+-+...
T Consensus       219 ki~~lL~EY~~s~D~~EA~~ci~EL~~p~f-hhe~V~~av~~aLE~~~~~~re~~~~LL~~L~~~glls~~q  289 (358)
T 3eiq_C          219 EIDMLLKEYLLSGDISEAEHCLKELEVPHF-HHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQ  289 (358)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHCCTTC-HHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHH
T ss_pred             HHHHHHHHhccCCCHHHHHHHHHHccCCcc-hHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCCCHHH
Confidence            357778888888999999999988854222 123334444444444332  345777777777766554443

>2wvi_A Mitotic checkpoint serine/threonine-protein kinase BUB1 beta; tumor suppressor, TPR, apoptosis, cell division, cell cycle, kinetochore, transferase; 1.80A {Homo sapiens} PDB: 3si5_A

Probab=82.20  E-value=7.7  Score=24.81  Aligned_cols=52  Identities=15%  Similarity=0.162  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHCCCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 027412          116 AFDVYEEMCENNISPN-IVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDV  167 (223)
Q Consensus       116 a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  167 (223)
                      ...+|..|...|+-.. ...|......+-..|++.+|.++|...++.+-.|-.
T Consensus        79 p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~A~P~~  131 (164)
T 2wvi_A           79 PLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQKAEPLE  131 (164)
T ss_dssp             HHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHH
T ss_pred             HHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHH
Confidence            5556666665554332 334555555666666666666666666666555543

>3eyy_A Putative iron uptake regulatory protein; NUR, nickel-uptake regulator, D-domain, dimerization domain, DB-domain, DNA-binding domain; 2.40A {Streptomyces coelicolor}

Probab=80.98  E-value=7.8  Score=24.08  Aligned_cols=60  Identities=12%  Similarity=0.072  Sum_probs=34.7

Q ss_pred             HHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCh
Q 027412           17 QLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (223)
Q Consensus        17 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   78 (223)
                      .+.+.|.+++.. -..++..+...+ .-.|.++++.+.+.++..+..|...-+..+...|-.
T Consensus         9 ~L~~~g~r~T~q-R~~Il~~l~~~~-h~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Glv   68 (145)
T 3eyy_A            9 DLRQRGYRLTPQ-RQLVLEAVDTLE-HATPDDILGEVRKTASGINISTVYRTLELLEELGLV   68 (145)
T ss_dssp             HHHTTTCCCCHH-HHHHHHHHHHHS-SBCHHHHHHHHHTTCTTCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHHcCCCcCHH-HHHHHHHHHhcC-CCCHHHHHHHHHhhCCCCCHhHHHHHHHHHHHCCcE
Confidence            345566665543 233444444555 667777777777666555665555555666665543

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=80.82  E-value=6.2  Score=22.88  Aligned_cols=85  Identities=14%  Similarity=0.056  Sum_probs=59.2

Q ss_pred             CHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHH
Q 027412            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFS   86 (223)
Q Consensus         7 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   86 (223)
                      ..++|..+-+.+...+.  ...+-..=+..+.+.|++++|..+.+...    .||...|-.|  +-.+.|..+++...+.
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~AL--ce~rlGl~s~le~rL~   92 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNP----WPALEPWFAL--CEWHLGLGAALDRRLA   92 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCC----CGGGHHHHHH--HHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHH--HHHhcccHHHHHHHHH
Confidence            46788888888887643  22222233456778999999998876654    7898888655  4467899999988888


Q ss_pred             HHHhcCCCccHHHH
Q 027412           87 KMLEKGPKANVVTY  100 (223)
Q Consensus        87 ~~~~~~~~~~~~~~  100 (223)
                      ++...|. |....|
T Consensus        93 ~la~sg~-p~~q~F  105 (115)
T 2uwj_G           93 GLGGSSD-PALADF  105 (115)
T ss_dssp             HHHTCSS-HHHHHH
T ss_pred             HHHhCCC-HHHHHH
Confidence            8877653 344444

>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=80.18  E-value=6.7  Score=22.81  Aligned_cols=85  Identities=13%  Similarity=0.068  Sum_probs=59.5

Q ss_pred             CHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHH
Q 027412            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFS   86 (223)
Q Consensus         7 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   86 (223)
                      ..++|..+-+.+...+.  ...+-..=+..+.+.|++++|..+.+...    .||...|-.|  +-.+.|..+++...+.
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~AL--ce~rlGl~s~le~rL~   93 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLAL--CEYRLGLGSALESRLN   93 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHH--HHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHH--HHHhcccHHHHHHHHH
Confidence            46788888888887643  22222233456778999999999887765    7899888655  4457888888888887


Q ss_pred             HHHhcCCCccHHHH
Q 027412           87 KMLEKGPKANVVTY  100 (223)
Q Consensus        87 ~~~~~~~~~~~~~~  100 (223)
                      ++...|. |....|
T Consensus        94 ~la~sg~-p~~q~F  106 (116)
T 2p58_C           94 RLARSQD-PRIQTF  106 (116)
T ss_dssp             HHTTCCC-HHHHHH
T ss_pred             HHHhCCC-HHHHHH
Confidence            8877653 344444

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	223
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	8e-06

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.5 bits (101), Expect = 8e-06
 Identities = 28/157 (17%), Positives = 65/157 (41%), Gaps = 8/157 (5%)

Query: 8   LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TFT 66
            D A+  + +          + +  + C Y     +D A+  + +   ++L+P+    + 
Sbjct: 219 FDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRR--AIELQPHFPDAYC 275

Query: 67  ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN 126
            L +A  ++G + +A   ++  L   P         L +   +  N++ A  +Y +  E 
Sbjct: 276 NLANALKEKGSVAEAEDCYNTALRLCPTHADSLN-NLANIKREQGNIEEAVRLYRKALE- 333

Query: 127 NISPNIV-SYSILIDGLCKRGLMEEALYAFHCALDNH 162
            + P    ++S L   L ++G ++EAL  +  A+   
Sbjct: 334 -VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS 369

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	223
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.85
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.81
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.75
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.68
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.67
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.64
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.64
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.6
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.52
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.47
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.41
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.4
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.4
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.32
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.29
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.28
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.27
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.26
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.24
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.24
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.2
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.17
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.16
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	99.13
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.07
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	99.05
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	99.04
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.03
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	99.0
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.94
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.93
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.92
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.91
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.89
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.88
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.87
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.85
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.82
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.81
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.72
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.71
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.68
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.65
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.65
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.63
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.63
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.61
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	98.3
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	98.27
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.25
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.19
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.11
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.01
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	98.0
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.85
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.14
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	97.01
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.78
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	95.76
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.16
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.02
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	94.44
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	91.16
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	81.03
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	80.71
d1h6pa_	203	TRF2 {Human (Homo sapiens) [TaxId: 9606]}	80.23

>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=99.85  E-value=2.5e-18  Score=125.15  Aligned_cols=207  Identities=16%  Similarity=0.142  Sum_probs=180.7

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   82 (223)
                      ...|++++|...+++..+..+ .+...+..+..++...|++++|...+++...... .+...+..+...+.+.|++++|+
T Consensus       180 ~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~  257 (388)
T d1w3ba_         180 NAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAI  257 (388)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cccCcHHHHHHHHHHHHHhCc-ccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHH
Confidence            457899999999999887643 3678899999999999999999999999987653 46778888999999999999999


Q ss_pred             HHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ..|++..+..+. +..++..+..++...|++++|...++...... +.+...+..+...+...|++++|++.+++..+..
T Consensus       258 ~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  335 (388)
T d1w3ba_         258 DTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF  335 (388)
T ss_dssp             HHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            999999998776 78899999999999999999999999998875 7788899999999999999999999999998876


Q ss_pred             CCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhhcC
Q 027412          163 LLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSS  216 (223)
Q Consensus       163 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~  216 (223)
                      + .+..++..+..++...|++++|...|++.++  +.|+ ...+..+...+.+.|
T Consensus       336 p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~lg~~~~~~~  387 (388)
T d1w3ba_         336 P-EFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             T-TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTC
T ss_pred             C-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcC
Confidence            5 3678899999999999999999999999998  5776 456777777766554

>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=99.81  E-value=2.1e-17  Score=118.03  Aligned_cols=190  Identities=16%  Similarity=0.111  Sum_probs=159.1

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      +.+.|++++|+..|+++.+..+ .+..+|..+..++...|++++|...+++..+..+. +...+..++.+|...|++++|
T Consensus        29 ~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A  106 (323)
T d1fcha_          29 RLQEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQA  106 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-ccccccccccccccccccccc
Confidence            4678999999999999998753 36889999999999999999999999999877543 678888999999999999999


Q ss_pred             HHHHHHHHhcCCC--------------------------------------------------ccHHHHHHHHHHHHhhC
Q 027412           82 TMMFSKMLEKGPK--------------------------------------------------ANVVTYSCLIDGYFKSQ  111 (223)
Q Consensus        82 ~~~~~~~~~~~~~--------------------------------------------------~~~~~~~~l~~~~~~~~  111 (223)
                      .+.+++.....+.                                                  .+..++..+...+...|
T Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~  186 (323)
T d1fcha_         107 CEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSG  186 (323)
T ss_dssp             HHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTT
T ss_pred             ccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHH
Confidence            9988876543211                                                  13445667778888899


Q ss_pred             ChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHH
Q 027412          112 NMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYD  191 (223)
Q Consensus       112 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  191 (223)
                      ++++|...+++..... +.+..++..+..++...|++++|.+.|++..+..+ -+..++..+..+|...|++++|+..|+
T Consensus       187 ~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~  264 (323)
T d1fcha_         187 EYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRSRYNLGISCINLGAHREAVEHFL  264 (323)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhh-ccHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999988764 55678888999999999999999999999887654 367788889999999999999999999


Q ss_pred             HHHH
Q 027412          192 SMLR  195 (223)
Q Consensus       192 ~~~~  195 (223)
                      +.++
T Consensus       265 ~al~  268 (323)
T d1fcha_         265 EALN  268 (323)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

>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=99.75  E-value=1.9e-15  Score=109.62  Aligned_cols=210  Identities=20%  Similarity=0.208  Sum_probs=176.7

Q ss_pred             ccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHH
Q 027412            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (223)
Q Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   84 (223)
                      .+....+...+....... +.+...+..+...+...|++++|...+++..+..+. +..++..+...+...|++++|...
T Consensus       148 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~  225 (388)
T d1w3ba_         148 LGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAA  225 (388)
T ss_dssp             TSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHH
T ss_pred             cchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHH
Confidence            345566666776666553 335778888999999999999999999999876533 678899999999999999999999


Q ss_pred             HHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 027412           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL  164 (223)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  164 (223)
                      +++....++. +...+..+..++.+.|++++|...|+++.+.. +.+..++..+...+...|++++|.+.++......+ 
T Consensus       226 ~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-  302 (388)
T d1w3ba_         226 YLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCP-  302 (388)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCT-
T ss_pred             HHHhHHHhhh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCC-
Confidence            9999988766 67788889999999999999999999999875 66788999999999999999999999999887655 


Q ss_pred             CCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhhcCCCccc
Q 027412          165 PDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQEH  221 (223)
Q Consensus       165 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~~  221 (223)
                      .+...+..+..++...|++++|+..+++.++  +.|+ ...+..+...+.+.|+.++|
T Consensus       303 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~la~~~~~~g~~~~A  358 (388)
T d1w3ba_         303 THADSLNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEA  358 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHHTTTCCHHH
T ss_pred             ccchhhhHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            5788899999999999999999999999987  4666 45566777777777766543

>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=99.68  E-value=3.1e-14  Score=101.13  Aligned_cols=206  Identities=10%  Similarity=-0.007  Sum_probs=167.4

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC-chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      .+.+.+++|+++++++++..+. +..+|+....++...| ++++|+..+++..+..+. +..+|..+..++.+.|++++|
T Consensus        54 ~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~~~~l~~~~eA  131 (315)
T d2h6fa1          54 QRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDPSQE  131 (315)
T ss_dssp             HHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTH
T ss_pred             HhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHHHHhhccHHHH
Confidence            4667899999999999998533 6778999999888876 589999999999887644 788999999999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC------HHHHHHHH
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL------MEEALYAF  155 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a~~~~  155 (223)
                      +..++++.+.++. +..+|..+..++...|++++|+..++++++.+ +.+...|+.+...+.+.+.      +++|++.+
T Consensus       132 l~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~  209 (315)
T d2h6fa1         132 LEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYT  209 (315)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHH
T ss_pred             HHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhhhhHHhHHHH
Confidence            9999999999887 89999999999999999999999999999976 6678889888887777665      67899999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhh
Q 027412          156 HCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQ  214 (223)
Q Consensus       156 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~  214 (223)
                      .++++..+ .+...|..+...+.. ...+++.+.++...+....+. ...+..+...|..
T Consensus       210 ~~al~~~P-~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         210 LEMIKLVP-HNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHST-TCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             HHHHHhCC-CchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence            99888776 477888777666554 446888888888877433222 3344555555543

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=2.6e-14  Score=101.76  Aligned_cols=184  Identities=17%  Similarity=0.074  Sum_probs=153.2

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC
Q 027412           32 TIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ  111 (223)
Q Consensus        32 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  111 (223)
                      .....+.+.|++++|+..|+++.+..+. +..+|..+..++...|++++|...+++..+..|. +...|..++.++...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccc
Confidence            4566788999999999999999988644 7889999999999999999999999999998876 7889999999999999


Q ss_pred             ChhHHHHHHHHHHHCCC--------------------------------------------------CCChhHHHHHHHH
Q 027412          112 NMKSAFDVYEEMCENNI--------------------------------------------------SPNIVSYSILIDG  141 (223)
Q Consensus       112 ~~~~a~~~~~~~~~~~~--------------------------------------------------~~~~~~~~~l~~~  141 (223)
                      ++++|...++.+.....                                                  ..+..++..+...
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            99999998887754310                                                  1234456777888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCc-hhhHHHHhhhHhhcCCCcc
Q 027412          142 LCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       142 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~  220 (223)
                      +...|++++|...+++.....+ -+...|..+..++...|++++|.+.|++.++.  .|+ ...+..+..+|.+.|..++
T Consensus       182 ~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~  258 (323)
T d1fcha_         182 FNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHRE  258 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHhhhhccccccccccc-ccccchhhhhhcccccccchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHH
Confidence            8899999999999999987765 36788999999999999999999999999884  555 4566677777777766443

>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=99.64  E-value=5.6e-14  Score=99.79  Aligned_cols=180  Identities=9%  Similarity=0.022  Sum_probs=153.5

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcC-ChhHHHHHHHHHHhcCCCccHHHHHHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG-RMDDATMMFSKMLEKGPKANVVTYSCLID  105 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (223)
                      ..+++.+..++.+.+.+++|+.+++++.+.++. +..+|+....++...| ++++|+..+++..+.++. +..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhH
Confidence            567788888899999999999999999988644 7888999999988876 589999999999999887 8999999999


Q ss_pred             HHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---
Q 027412          106 GYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR---  182 (223)
Q Consensus       106 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---  182 (223)
                      ++.+.|++++|+..++++.+.. +.+..+|..+...+...|++++|++.++++++.++ .+...|+.+..++.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHHccccch
Confidence            9999999999999999999876 77899999999999999999999999999999876 478889888888777776   


Q ss_pred             ---cchHHHHHHHHHHCCCCCch-hhHHHHhhhH
Q 027412          183 ---PTEAMQLYDSMLRNGIMPDG-LLLSTLADYN  212 (223)
Q Consensus       183 ---~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~  212 (223)
                         +++|+..+.++++.  .|+. ..+..+...+
T Consensus       199 ~~~~~~ai~~~~~al~~--~P~~~~~~~~l~~ll  230 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKL--VPHNESAWNYLKGIL  230 (315)
T ss_dssp             HHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHh--CCCchHHHHHHHHHH
Confidence               46788888888874  5654 4444443333

>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=99.64  E-value=3.5e-13  Score=92.79  Aligned_cols=195  Identities=14%  Similarity=-0.012  Sum_probs=142.6

Q ss_pred             cccCHHHHHHHHHHHhhCCCC-c--CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhH
Q 027412            4 KECHLDAALKLFGQLTDRGLE-P--DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~-~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   80 (223)
                      ...+.+.|+..++++...... +  ...++..+..+|.+.|++++|+..|++..+..+. ++.+|+.+..++.+.|++++
T Consensus        11 ~~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~   89 (259)
T d1xnfa_          11 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDA   89 (259)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHH
T ss_pred             ccHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHH
Confidence            345667778888887765221 1  2446778888999999999999999999887643 78889999999999999999


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      |+..|++..+.++. +..++..+..++...|++++|...++...+.. +.+......+...+.+.+..+.+..+......
T Consensus        90 A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (259)
T d1xnfa_          90 AYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  167 (259)
T ss_dssp             HHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             hhhhhhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence            99999999998776 67788889999999999999999999988764 44555444444444544444444333333222


Q ss_pred             CCCC----------------------------------C-CHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          161 NHLL----------------------------------P-DVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       161 ~~~~----------------------------------~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                      ....                                  | ...+|..+...+...|++++|...|++.+..  .|+..
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~  243 (259)
T d1xnfa_         168 SDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHNF  243 (259)
T ss_dssp             SCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTTC
T ss_pred             cchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCH
Confidence            1110                                  1 1245667889999999999999999999974  66643

>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=99.60  E-value=5.1e-13  Score=94.50  Aligned_cols=189  Identities=13%  Similarity=0.125  Sum_probs=156.4

Q ss_pred             cCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHH
Q 027412            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMF   85 (223)
Q Consensus         6 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   85 (223)
                      +..++|..+|++..+...+.+...|...+....+.|+++.|..+|+++.+........+|...+....+.|+++.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            45688999999998765555677889999999999999999999999987755444567899999999999999999999


Q ss_pred             HHHHhcCCCccHHHHHHHHHH-HHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-
Q 027412           86 SKMLEKGPKANVVTYSCLIDG-YFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL-  163 (223)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-  163 (223)
                      ++..+.++. +...|...+.. +...|+.+.|..+|+.+.... +.+...|...+....+.|+++.|..+|++..+..+ 
T Consensus       158 ~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            999988665 45555554443 344689999999999999863 67788999999999999999999999999987643 


Q ss_pred             CC--CHHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          164 LP--DVVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       164 ~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                      .|  ....|...+..-...|+.+.+..+++++.+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            23  3467888888888899999999999998774

>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=99.52  E-value=1.3e-11  Score=87.14  Aligned_cols=202  Identities=11%  Similarity=0.058  Sum_probs=156.1

Q ss_pred             CHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh--------------cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHH
Q 027412            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCS--------------LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAF   72 (223)
Q Consensus         7 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~--------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   72 (223)
                      ..+.+..+|+++...- +.++..|...+..+.+              .+..++|..+|++..+...+.+...|...+...
T Consensus        31 ~~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~  109 (308)
T d2onda1          31 ITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYE  109 (308)
T ss_dssp             HHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            3566788898887753 3466677666654433              234578999999998755455777888888999


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHH-HHhcCCHHHH
Q 027412           73 CKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDG-LCKRGLMEEA  151 (223)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a  151 (223)
                      ...|+++.|..+|++++...+......|..++..+.+.|+++.|..+|+.+.+.+ +.+...|...+.. +...|+.+.|
T Consensus       110 ~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a  188 (308)
T d2onda1         110 ESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             HHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             HhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHH
Confidence            9999999999999999987665445689999999999999999999999998875 5556666655544 3446899999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCC-CCCch--hhHHHHhhh
Q 027412          152 LYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNG-IMPDG--LLLSTLADY  211 (223)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~p~~--~~~~~l~~~  211 (223)
                      ..+|+.+.+..+ .+...|...+......|+++.|..+|++..+.. ..|+.  ..|...+..
T Consensus       189 ~~i~e~~l~~~p-~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~f  250 (308)
T d2onda1         189 FKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAF  250 (308)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHHhhh-hhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHH
Confidence            999999998654 478899999999999999999999999998863 34432  345555443

>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=99.47  E-value=2.3e-11  Score=83.48  Aligned_cols=159  Identities=13%  Similarity=-0.032  Sum_probs=120.3

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      |.+.|++++|++.|++..+..+ -++.+|..+..++.+.|++++|+..|+++.+..+. +..++..+..++...|++++|
T Consensus        47 y~~~g~~~~A~~~~~~al~l~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A  124 (259)
T d1xnfa_          47 YDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLA  124 (259)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHhhccCC-CCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHH
Confidence            5678999999999999998753 36889999999999999999999999999987643 567888899999999999999


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC---------------------------------
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI---------------------------------  128 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------------------------------  128 (223)
                      ...|++..+..+. +......+..++.+.+..+....+.........                                 
T Consensus       125 ~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (259)
T d1xnfa_         125 QDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTS  203 (259)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHH
T ss_pred             HHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            9999999988765 444444444444444444433333333222110                                 


Q ss_pred             --CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 027412          129 --SPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHL  163 (223)
Q Consensus       129 --~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  163 (223)
                        +....++..+...+...|++++|.+.|++.+...+
T Consensus       204 ~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         204 LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence              01123456688899999999999999999998765

>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=99.41  E-value=5.8e-11  Score=77.87  Aligned_cols=126  Identities=13%  Similarity=0.030  Sum_probs=96.9

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCCh
Q 027412           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM  113 (223)
Q Consensus        34 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  113 (223)
                      ...+...|+++.|++.|.++.    +|++.+|..+..+|...|++++|++.|++.++.++. +...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccH
Confidence            455677888999988887653    567778888889999999999999999998888776 788888888889999999


Q ss_pred             hHHHHHHHHHHHCCCCC----------------ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 027412          114 KSAFDVYEEMCENNISP----------------NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLP  165 (223)
Q Consensus       114 ~~a~~~~~~~~~~~~~~----------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  165 (223)
                      ++|...|++..... +.                ...++..+..++.+.|++++|.+.+....+..+.+
T Consensus        87 ~~A~~~~~kAl~~~-~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          87 DLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHhC-ccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            99998888876531 11                12455667777788888888888887777665543

>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=99.40  E-value=4.5e-12  Score=90.56  Aligned_cols=197  Identities=8%  Similarity=-0.021  Sum_probs=149.3

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcC--chhHHHHHHHHHHhCCCCCcHHHH-HHHHHHHHhcCChhH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN--RLDEAVQLFEKLTCVQLKPNSITF-TILIDAFCKEGRMDD   80 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~   80 (223)
                      ..|++++|+.+++...+..+ .+...|..+..++...+  +++++...++++.+..+. +...+ ......+...+.+++
T Consensus        85 ~~~~~~~al~~~~~~l~~~p-k~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVNP-KSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCC-CcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHH
Confidence            35678899999999988753 36778888877777766  488999999999877544 45544 456677888899999


Q ss_pred             HHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHH------------------------------HHHHHHHHCCCCC
Q 027412           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAF------------------------------DVYEEMCENNISP  130 (223)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~------------------------------~~~~~~~~~~~~~  130 (223)
                      |+..++...+.++. +...|+.+..++...|++++|.                              ..+....... ++
T Consensus       163 Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~  240 (334)
T d1dcea1         163 ELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR-AE  240 (334)
T ss_dssp             HHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSC-CC
T ss_pred             HHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHhC-cc
Confidence            99999999998887 8889998999988888765432                              2222222221 33


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHH
Q 027412          131 NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLST  207 (223)
Q Consensus       131 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  207 (223)
                      +...+..++..+...+++++|...+.+..+.++ .+...+..+..++...|++++|.+.++++.+  +.|+...|..
T Consensus       241 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~~y~~  314 (334)
T d1dcea1         241 PLFRCELSVEKSTVLQSELESCKELQELEPENK-WCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAYLD  314 (334)
T ss_dssp             CSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCH-HHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGHHHHH
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCc-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccHHHHH
Confidence            344455566777788999999999998887664 3667888999999999999999999999998  5787554443

>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=99.40  E-value=7.4e-11  Score=77.35  Aligned_cols=146  Identities=11%  Similarity=-0.070  Sum_probs=117.6

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHH
Q 027412           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLC  143 (223)
Q Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  143 (223)
                      .|+ -...+...|+++.|++.|+++    .+|+..+|..+..+|...|++++|...|++.++.+ +.+...|..+..++.
T Consensus         8 l~~-~g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~   81 (192)
T d1hh8a_           8 LWN-EGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   81 (192)
T ss_dssp             HHH-HHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHH-HHHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHH
Confidence            344 366778899999999999865    34577889999999999999999999999999986 777889999999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCC--------------C-CHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHH
Q 027412          144 KRGLMEEALYAFHCALDNHLL--------------P-DVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTL  208 (223)
Q Consensus       144 ~~~~~~~a~~~~~~~~~~~~~--------------~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  208 (223)
                      +.|++++|.+.|++.+.....              + ...++..+..++...|++++|.+.+.+..+....|+.......
T Consensus        82 ~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~A  161 (192)
T d1hh8a_          82 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKA  161 (192)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHH
T ss_pred             hhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHH
Confidence            999999999999998753211              1 1356778888999999999999999999986555555555555


Q ss_pred             hhhHhhc
Q 027412          209 ADYNLQS  215 (223)
Q Consensus       209 ~~~~~~~  215 (223)
                      +..+.+.
T Consensus       162 l~~~~~~  168 (192)
T d1hh8a_         162 MECVWKQ  168 (192)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHhh
Confidence            5554443

>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=99.32  E-value=2.6e-10  Score=68.49  Aligned_cols=94  Identities=21%  Similarity=0.184  Sum_probs=57.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC
Q 027412           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL  147 (223)
Q Consensus        68 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  147 (223)
                      -+..+.+.|++++|+..|++.++..|. +...|..+..++...|++++|+..++...+.+ +.+...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccC
Confidence            344555566666666666666665554 55566666666666666666666666666554 4555666666666666666


Q ss_pred             HHHHHHHHHHHHhCCC
Q 027412          148 MEEALYAFHCALDNHL  163 (223)
Q Consensus       148 ~~~a~~~~~~~~~~~~  163 (223)
                      +++|+..|++..+..+
T Consensus        87 ~~~A~~~~~~a~~~~p  102 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEA  102 (117)
T ss_dssp             HHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHHHhCC
Confidence            6666666666665443

>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=99.29  E-value=3.2e-10  Score=68.07  Aligned_cols=106  Identities=18%  Similarity=0.108  Sum_probs=85.6

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhh
Q 027412           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS  110 (223)
Q Consensus        31 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  110 (223)
                      ..-...+.+.|++++|+..|++..+..+. +...|..+..+|...|++++|+..+++..+.++. +...|..+..++...
T Consensus         7 ~~~g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           7 KEKGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHc
Confidence            34466788889999999999998877633 7788888999999999999999999999988776 788888899999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCChhHHHHHH
Q 027412          111 QNMKSAFDVYEEMCENNISPNIVSYSILI  139 (223)
Q Consensus       111 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  139 (223)
                      |++++|+..|++..+.. |-+...+..+.
T Consensus        85 ~~~~~A~~~~~~a~~~~-p~~~~~~~~l~  112 (117)
T d1elwa_          85 NRFEEAKRTYEEGLKHE-ANNPQLKEGLQ  112 (117)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            99999999999998764 44444444443

>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=99.28  E-value=3.5e-10  Score=71.78  Aligned_cols=92  Identities=13%  Similarity=0.141  Sum_probs=58.8

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCC
Q 027412           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN  112 (223)
Q Consensus        33 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  112 (223)
                      ....|.+.|++++|+..|++..+..+. +...|..+..+|...|++++|...|++.++.++. +..+|..++.++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHcCC
Confidence            344566666666666666666665432 5566666666666666666666666666666554 55666666666666666


Q ss_pred             hhHHHHHHHHHHHC
Q 027412          113 MKSAFDVYEEMCEN  126 (223)
Q Consensus       113 ~~~a~~~~~~~~~~  126 (223)
                      +++|...+++....
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            66666666666654

>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=99.27  E-value=3e-10  Score=72.10  Aligned_cols=121  Identities=15%  Similarity=0.143  Sum_probs=99.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHh
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCK  144 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  144 (223)
                      +...+..|.+.|++++|+..|++..+.++. +...|..+..+|...|++++|...|+++++.+ +.+..+|..++.++..
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHH
Confidence            444577888999999999999999999887 89999999999999999999999999999875 6778899999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCCcchHHH
Q 027412          145 RGLMEEALYAFHCALDNHLLPDVVTYAILIRG--YCKAGRPTEAMQ  188 (223)
Q Consensus       145 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~  188 (223)
                      .|++++|...+++.....+. +...+..+..+  ....+.++++..
T Consensus        91 ~g~~~eA~~~~~~a~~~~p~-~~~~~~~l~~~~~~~~~~~~~~a~~  135 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIA  135 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999987652 45555554433  233344444544

>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=99.26  E-value=4.1e-11  Score=79.06  Aligned_cols=100  Identities=11%  Similarity=0.012  Sum_probs=82.4

Q ss_pred             cCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHH
Q 027412           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (223)
Q Consensus        25 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (223)
                      |+...+......+.+.|++++|+..|++..+..+ .++..|..++.+|.+.|++++|+..|++.++..|. +..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p-~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHHH
Confidence            5677777788888888888888888888877753 37788888888888888888888888888887665 677888888


Q ss_pred             HHHHhhCChhHHHHHHHHHHHC
Q 027412          105 DGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus       105 ~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      .+|...|++++|...|+++.+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            8888888888888888887753

>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=99.24  E-value=3.9e-09  Score=74.97  Aligned_cols=219  Identities=11%  Similarity=-0.034  Sum_probs=139.7

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcC----HHHHHHHHHHHHhcCchhHHHHHHHHHHhCC----CCC-cHHHHHHHHHHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPD----IITYNTIICGYCSLNRLDEAVQLFEKLTCVQ----LKP-NSITFTILIDAF   72 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~   72 (223)
                      +...|++++|++++++..+.....+    ..++..+..++...|++++|...+++..+..    ..+ ....+..+...+
T Consensus        22 ~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  101 (366)
T d1hz4a_          22 AINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEIL  101 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHH
Confidence            3567999999999999887632222    3467778889999999999999999876532    111 123556667777


Q ss_pred             HhcCChhHHHHHHHHHHhc----CC--Cc-cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCC----C-----------
Q 027412           73 CKEGRMDDATMMFSKMLEK----GP--KA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS----P-----------  130 (223)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~----~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~-----------  130 (223)
                      ...|++..+...+.+....    ..  .+ ....+..+...+...|+++.+...+.........    .           
T Consensus       102 ~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (366)
T d1hz4a_         102 FAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQC  181 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHH
Confidence            7888888888877766542    11  11 1234455666777777777777777665532110    0           


Q ss_pred             ------------------------------ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHH
Q 027412          131 ------------------------------NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL---PDVVTYAILIRGY  177 (223)
Q Consensus       131 ------------------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~  177 (223)
                                                    ....+......+...|+++.|...+.........   .....+..+..++
T Consensus       182 ~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~  261 (366)
T d1hz4a_         182 SLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQ  261 (366)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHH
Confidence                                          0112344455566777888888887776654322   2244566678888


Q ss_pred             HhcCCcchHHHHHHHHHHC----CCCCch-hhHHHHhhhHhhcCCCcc
Q 027412          178 CKAGRPTEAMQLYDSMLRN----GIMPDG-LLLSTLADYNLQSSGSQE  220 (223)
Q Consensus       178 ~~~g~~~~a~~~~~~~~~~----~~~p~~-~~~~~l~~~~~~~~~~~~  220 (223)
                      ...|++++|...++++...    +..|+. ..+..+...+.+.|+.++
T Consensus       262 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  309 (366)
T d1hz4a_         262 ILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSD  309 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHH
Confidence            8889999988888877632    444543 345555566666665543

>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=99.24  E-value=2.1e-10  Score=75.55  Aligned_cols=99  Identities=14%  Similarity=0.147  Sum_probs=91.1

Q ss_pred             CcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHH
Q 027412           60 PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILI  139 (223)
Q Consensus        60 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  139 (223)
                      |+...+...+..+.+.|++++|+..|++.+...|. +...|..+..+|.+.|++++|+..|+++.+.. |-+..+|..++
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            67777888999999999999999999999999877 89999999999999999999999999999864 55688999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 027412          140 DGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus       140 ~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      .+|...|++++|...|+++.+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999998875

>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=99.20  E-value=5.3e-10  Score=78.09  Aligned_cols=191  Identities=14%  Similarity=-0.017  Sum_probs=105.4

Q ss_pred             ccccCHHHHHHHHHHHhhC----CCCcC-HHHHHHHHHHHHhcCchhHHHHHHHHHHhC----C-CCCcHHHHHHHHHHH
Q 027412            3 IKECHLDAALKLFGQLTDR----GLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCV----Q-LKPNSITFTILIDAF   72 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~   72 (223)
                      ...|++++|++.|.+..+.    +-+++ ..+|..+..+|.+.|++++|...+++..+.    + ......++..+...|
T Consensus        48 ~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~  127 (290)
T d1qqea_          48 RLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEIL  127 (290)
T ss_dssp             HHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhH
Confidence            3456777777777766542    11111 346677777777777777777777765432    1 111133455555555


Q ss_pred             Hh-cCChhHHHHHHHHHHhc----CCCc-cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC------hhHHHHHHH
Q 027412           73 CK-EGRMDDATMMFSKMLEK----GPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN------IVSYSILID  140 (223)
Q Consensus        73 ~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~  140 (223)
                      .. .|++++|++.+++....    +..+ ...++..+...+...|++++|...|+++........      ...+...+.
T Consensus       128 ~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (290)
T d1qqea_         128 ENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGL  207 (290)
T ss_dssp             HHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHH
Confidence            43 57777777777766542    1111 134566677777777777777777777765421111      012334455


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC-CC---HHHHHHHHHHHHh--cCCcchHHHHHHHH
Q 027412          141 GLCKRGLMEEALYAFHCALDNHLL-PD---VVTYAILIRGYCK--AGRPTEAMQLYDSM  193 (223)
Q Consensus       141 ~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~--~g~~~~a~~~~~~~  193 (223)
                      .+...|+++.|...+++..+..+. ++   ......++.++..  .+.+++|+..|+++
T Consensus       208 ~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         208 CQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             HHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            566677777777777777654321 11   1233445555443  12355566555443

>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=99.17  E-value=1.4e-09  Score=75.94  Aligned_cols=169  Identities=12%  Similarity=-0.055  Sum_probs=126.4

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhC----CCCC-cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCC-----CccH
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKP-NSITFTILIDAFCKEGRMDDATMMFSKMLEKGP-----KANV   97 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~   97 (223)
                      ..|.....+|...+++++|.+.|.+..+.    +-.+ -..+|..+..+|.+.|++++|.+.+++......     ....
T Consensus        38 ~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~  117 (290)
T d1qqea_          38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (290)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHH
Confidence            35777788899999999999999988653    1111 245789999999999999999999998765421     1124


Q ss_pred             HHHHHHHHHHHh-hCChhHHHHHHHHHHHC----CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-----
Q 027412           98 VTYSCLIDGYFK-SQNMKSAFDVYEEMCEN----NISP-NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPD-----  166 (223)
Q Consensus        98 ~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----  166 (223)
                      .++..+...|.. .|++++|...+++..+.    +.++ ...++..++..+...|++++|...|+++........     
T Consensus       118 ~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~  197 (290)
T d1qqea_         118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (290)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhh
Confidence            556667777754 69999999999988642    2111 234678899999999999999999999886533211     


Q ss_pred             -HHHHHHHHHHHHhcCCcchHHHHHHHHHHC
Q 027412          167 -VVTYAILIRGYCKAGRPTEAMQLYDSMLRN  196 (223)
Q Consensus       167 -~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  196 (223)
                       ...+...+..+...|+++.|...+++..+.
T Consensus       198 ~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         198 LKDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence             123455666778899999999999998774

>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=99.16  E-value=5.1e-10  Score=66.59  Aligned_cols=89  Identities=12%  Similarity=0.039  Sum_probs=51.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC
Q 027412           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGL  147 (223)
Q Consensus        68 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  147 (223)
                      +...+.+.|++++|+..|++....+|. +..+|..+..++.+.|++++|+..|++..+.+ |.+..++..+..+|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCC
Confidence            444555556666666666665555544 55555556666666666666666666555543 4445555556666666666


Q ss_pred             HHHHHHHHHHH
Q 027412          148 MEEALYAFHCA  158 (223)
Q Consensus       148 ~~~a~~~~~~~  158 (223)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666555543

>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=99.13  E-value=5.3e-10  Score=67.43  Aligned_cols=93  Identities=12%  Similarity=0.048  Sum_probs=41.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhC---ChhHHHHHHHHHHHCCCCCC-hhHHHHHHHHHH
Q 027412           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ---NMKSAFDVYEEMCENNISPN-IVSYSILIDGLC  143 (223)
Q Consensus        68 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~  143 (223)
                      +++.+...+++++|++.|++....++. ++.++..+..++.+.+   ++++|+.+++++...+..|+ ..++..+..+|.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            444444444555555555555544443 4444444444444322   22334444444444321111 123444444455


Q ss_pred             hcCCHHHHHHHHHHHHhC
Q 027412          144 KRGLMEEALYAFHCALDN  161 (223)
Q Consensus       144 ~~~~~~~a~~~~~~~~~~  161 (223)
                      +.|++++|.+.|+++++.
T Consensus        84 ~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHHh
Confidence            555555555555554443

>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=99.07  E-value=2.2e-09  Score=63.73  Aligned_cols=92  Identities=14%  Similarity=0.068  Sum_probs=82.8

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhh
Q 027412           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS  110 (223)
Q Consensus        31 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  110 (223)
                      ..+...+.+.|++++|+..|++.....+. ++.+|..+..++.+.|++++|+..|++..+.+|. +..+|..+..+|...
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~   97 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHC
Confidence            44567788999999999999999887643 7899999999999999999999999999999877 889999999999999


Q ss_pred             CChhHHHHHHHHHH
Q 027412          111 QNMKSAFDVYEEMC  124 (223)
Q Consensus       111 ~~~~~a~~~~~~~~  124 (223)
                      |++++|.+.+++.+
T Consensus        98 g~~~~A~~~l~~~l  111 (112)
T d1hxia_          98 HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999998764

>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=99.05  E-value=1.6e-08  Score=64.68  Aligned_cols=97  Identities=12%  Similarity=0.017  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC--------------cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 027412           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP--------------NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK   94 (223)
Q Consensus        29 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   94 (223)
                      .+......+.+.|++++|+..|.+........              -..+|+.+..+|.+.|++++|+..++..+..+|.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~   94 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSN   94 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcccc
Confidence            34455667777888888888887765431110              0123444555555555555555555555555444


Q ss_pred             ccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           95 ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        95 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                       ++.+|..+..++...|++++|...|+++.+.
T Consensus        95 -~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          95 -NEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -chhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence             4555555555555555555555555555554

>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=99.04  E-value=5e-09  Score=63.03  Aligned_cols=96  Identities=11%  Similarity=0.139  Sum_probs=73.5

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCC---hhHHHHHHHHHHhcCCCcc-HHHHHHHHHH
Q 027412           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR---MDDATMMFSKMLEKGPKAN-VVTYSCLIDG  106 (223)
Q Consensus        31 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~  106 (223)
                      ..++..+...+++++|.+.|++....++ .++.++..+..++.+.++   +++|+.+++++...++.|+ ..+|..+..+
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            4567777888888888888888887763 377777788888876544   4568888888887665544 3467778888


Q ss_pred             HHhhCChhHHHHHHHHHHHCC
Q 027412          107 YFKSQNMKSAFDVYEEMCENN  127 (223)
Q Consensus       107 ~~~~~~~~~a~~~~~~~~~~~  127 (223)
                      |.+.|++++|...|+++.+..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhHHHHHHHHHHHHhC
Confidence            888899999999998888854

>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=99.03  E-value=1.7e-09  Score=76.97  Aligned_cols=140  Identities=11%  Similarity=-0.008  Sum_probs=104.5

Q ss_pred             HHHHHHHHHHHhhCCCCcCHHHHHHHHHH----------HHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcC-
Q 027412            8 LDAALKLFGQLTDRGLEPDIITYNTIICG----------YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG-   76 (223)
Q Consensus         8 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~----------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-   76 (223)
                      .++|+++++++.+..+. +...|+..-..          +...|++++|+.+++...+..+. +...|..+..++...+ 
T Consensus        45 ~~~al~~~~~~l~~~P~-~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~  122 (334)
T d1dcea1          45 DESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPE  122 (334)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSS
T ss_pred             cHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhcc
Confidence            47899999999887422 34455443333          33345578999999999877543 7777887877777765 


Q ss_pred             -ChhHHHHHHHHHHhcCCCccHHHH-HHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHH
Q 027412           77 -RMDDATMMFSKMLEKGPKANVVTY-SCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEA  151 (223)
Q Consensus        77 -~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  151 (223)
                       ++++|...+.++....+. +...+ ......+...+.+++|+..++.+...+ +-+...|+.+..++...|++++|
T Consensus       123 ~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A  197 (334)
T d1dcea1         123 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDS  197 (334)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             ccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHH
Confidence             478999999999998776 45554 445577778899999999999998876 66788888888888888876554

>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=99.00  E-value=3e-08  Score=63.34  Aligned_cols=117  Identities=15%  Similarity=0.030  Sum_probs=90.5

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCc--------------cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKA--------------NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  128 (223)
                      ..+...+..+.+.|++++|+..|.+.+...+..              ...+|+.+..+|.+.|++++|+..++..+..+ 
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-   92 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-   92 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-
Confidence            345667788899999999999999887653221              12456778888999999999999999998875 


Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 027412          129 SPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG  181 (223)
Q Consensus       129 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  181 (223)
                      |.++.++..++.+|...|++++|...|++..+..+ -+......+..+....+
T Consensus        93 p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P-~n~~~~~~l~~~~~~~~  144 (170)
T d1p5qa1          93 SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRIR  144 (170)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHHH
T ss_pred             ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHH
Confidence            66888999999999999999999999999988765 26666655555544333

>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=98.94  E-value=1.9e-08  Score=61.07  Aligned_cols=95  Identities=18%  Similarity=0.206  Sum_probs=58.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCC-------hhHHHH
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN-------IVSYSI  137 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~~~  137 (223)
                      +..++..+.+.|++++|+..|++.++.+|. +...+..+..+|.+.|++++|...++++++.. +.+       ..+|..
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~-~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVG-RENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            345566666667777777777776666654 56666666777777777777777776665432 111       124455


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC
Q 027412          138 LIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus       138 l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                      +...+...+++++|.+.|.+....
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhc
Confidence            555566666666666666665543

>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=98.93  E-value=6.3e-08  Score=60.65  Aligned_cols=63  Identities=19%  Similarity=0.084  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        99 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      +|..+..+|.+.|++++|+..++.+++.+ |.+..+|..++.++...|++++|...|++..+..
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            44445555555555555555555555543 4445555555555555555555555555555444

>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=98.92  E-value=1.5e-07  Score=66.53  Aligned_cols=193  Identities=14%  Similarity=0.055  Sum_probs=139.4

Q ss_pred             ccccCHHHHHHHHHHHhhC----CCCc---CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCC----CCCcHHHHHHHHHH
Q 027412            3 IKECHLDAALKLFGQLTDR----GLEP---DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ----LKPNSITFTILIDA   71 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~   71 (223)
                      ...|++..|...+......    +...   ....+..+...+...|+++.+...+.......    .......+..+...
T Consensus       102 ~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (366)
T d1hz4a_         102 FAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQC  181 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHH
Confidence            3557788888877765431    1111   13356677788999999999999998876542    22345566777788


Q ss_pred             HHhcCChhHHHHHHHHHHhcC----CCc--cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCC---CChhHHHHHHHHH
Q 027412           72 FCKEGRMDDATMMFSKMLEKG----PKA--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS---PNIVSYSILIDGL  142 (223)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~~----~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~  142 (223)
                      +...+++..+...+.+.....    ..+  ....+..+...+...|++++|...++........   .....+..+..++
T Consensus       182 ~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~  261 (366)
T d1hz4a_         182 SLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQ  261 (366)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHH
Confidence            888999999998887765431    111  2335666777888999999999999987754322   2234566788899


Q ss_pred             HhcCCHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          143 CKRGLMEEALYAFHCALD----NHLLP-DVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       143 ~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      ...|++++|...++.+..    .+..| ....+..+..++...|++++|.+.+++.++
T Consensus       262 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         262 ILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999998763    23323 345778889999999999999999998865

>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=98.91  E-value=1.3e-08  Score=61.81  Aligned_cols=107  Identities=15%  Similarity=0.186  Sum_probs=87.1

Q ss_pred             HHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC-----HHHHH
Q 027412           98 VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL-PD-----VVTYA  171 (223)
Q Consensus        98 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-----~~~~~  171 (223)
                      ..+..+...+.+.|++++|+..|++.++.+ |.+..++..+..+|.+.|++++|.+.++++++..+. +.     ..+|.
T Consensus         5 ~~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~   83 (128)
T d1elra_           5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (128)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            345568889999999999999999999986 678899999999999999999999999998864321 11     24777


Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHH
Q 027412          172 ILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLST  207 (223)
Q Consensus       172 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  207 (223)
                      .+...+...+++++|+..|++....  .|+......
T Consensus        84 ~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~  117 (128)
T d1elra_          84 RIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKK  117 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhc--CCCHHHHHH
Confidence            8888899999999999999998874  455544433

>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=98.89  E-value=4.8e-08  Score=62.28  Aligned_cols=81  Identities=16%  Similarity=0.018  Sum_probs=48.2

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIR  175 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  175 (223)
                      ....|..+..++.+.|++++|+..++++++.. |.+..+|..+..++.+.|++++|...|+++++..+ .+......+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p-~n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            34455556666666666666666666666654 45556666666666666666666666666666544 24444544444


Q ss_pred             HHH
Q 027412          176 GYC  178 (223)
Q Consensus       176 ~~~  178 (223)
                      +..
T Consensus       154 ~~~  156 (169)
T d1ihga1         154 VKQ  156 (169)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

>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=98.88  E-value=2.2e-06  Score=58.36  Aligned_cols=183  Identities=15%  Similarity=0.101  Sum_probs=105.1

Q ss_pred             ccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----
Q 027412            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----   74 (223)
Q Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----   74 (223)
                      .+.+++++|++.|++..+.|   +...+..|..+|..    ..+...+..+++.....+   ++.....+...+..    
T Consensus        13 ~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~~~~~~~~~~   86 (265)
T d1ouva_          13 YKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGV   86 (265)
T ss_dssp             HHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSS
T ss_pred             HHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhcccccccccccc
Confidence            45789999999999998875   56677777777776    568888999998887765   33444445444443    


Q ss_pred             cCChhHHHHHHHHHHhcCCCc---------------------------------cHHHHHHHHHHHHh----hCChhHHH
Q 027412           75 EGRMDDATMMFSKMLEKGPKA---------------------------------NVVTYSCLIDGYFK----SQNMKSAF  117 (223)
Q Consensus        75 ~~~~~~a~~~~~~~~~~~~~~---------------------------------~~~~~~~l~~~~~~----~~~~~~a~  117 (223)
                      .++.+.|...++.....+...                                 +...+..+...+..    ..+...+.
T Consensus        87 ~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~~  166 (265)
T d1ouva_          87 SQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDAGRGTPKDLKKAL  166 (265)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             chhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhcccccchhhhhhhhhccCCCcccccccch
Confidence            356677777777666554321                                 12223333333332    22333444


Q ss_pred             HHHHHHHHCCCCCChhHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCcchHHHH
Q 027412          118 DVYEEMCENNISPNIVSYSILIDGLCK----RGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCK----AGRPTEAMQL  189 (223)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~  189 (223)
                      .+++...+.|   +..+...+...|..    ..++++|..+|++..+.|   ++..+..|...|..    ..+.++|.++
T Consensus       167 ~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~  240 (265)
T d1ouva_         167 ASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIEN  240 (265)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHH
T ss_pred             hhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHH
Confidence            4444444432   34444445444443    345666666666665554   33444445555443    2356666666


Q ss_pred             HHHHHHCC
Q 027412          190 YDSMLRNG  197 (223)
Q Consensus       190 ~~~~~~~~  197 (223)
                      |++..+.|
T Consensus       241 ~~kAa~~g  248 (265)
T d1ouva_         241 FKKGCKLG  248 (265)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHCc
Confidence            66666555

>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=98.87  E-value=8.9e-08  Score=60.95  Aligned_cols=98  Identities=15%  Similarity=0.044  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhC---CCCCc-----------HHHHHHHHHHHHhcCChhHHHHHHHHHHhcCC
Q 027412           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCV---QLKPN-----------SITFTILIDAFCKEGRMDDATMMFSKMLEKGP   93 (223)
Q Consensus        28 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~-----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   93 (223)
                      ..+......+.+.|++.+|...|.+....   ...++           ..+|..+..+|.+.|++++|+..+++.+..+|
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p   95 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS   95 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhccc
Confidence            34566677788888888888888776532   11111           12233444455555555555555555555444


Q ss_pred             CccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           94 KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        94 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      . +..+|..+..++...|++++|...|+++...
T Consensus        96 ~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          96 A-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             T-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             c-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3 4445555555555555555555555555543

>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=98.85  E-value=1.2e-07  Score=59.38  Aligned_cols=74  Identities=15%  Similarity=-0.038  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhh
Q 027412          134 SYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLAD  210 (223)
Q Consensus       134 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  210 (223)
                      +++.+..+|.+.|++++|++.++++++.++ .+..+|..+..++...|++++|...|++..+  +.|+.......+.
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p-~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~n~~~~~~l~  142 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDK-NNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNLDIRNSYE  142 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccc-hhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            455566666666666666666666665554 3556666666666666666666666666665  3555444433333

>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=98.82  E-value=3.5e-07  Score=58.09  Aligned_cols=118  Identities=14%  Similarity=0.056  Sum_probs=90.1

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhc---CCCc-----------cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCC
Q 027412           63 ITFTILIDAFCKEGRMDDATMMFSKMLEK---GPKA-----------NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (223)
Q Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  128 (223)
                      ..+...+..+.+.|++++|...|++.+..   ....           ....|+.+..+|.+.|++++|+..++..++.+ 
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-   94 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-   94 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-
Confidence            45666788889999999999999887653   1111           12346668888899999999999999998875 


Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 027412          129 SPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR  182 (223)
Q Consensus       129 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  182 (223)
                      |.+..+|..+..++...|++++|...|+++++..+ .+......+..+....+.
T Consensus        95 p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P-~n~~~~~~l~~~~~~~~~  147 (168)
T d1kt1a1          95 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQIFMCQKKAKE  147 (168)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHh
Confidence            77888999999999999999999999999988765 466666665555444443

>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=98.81  E-value=1.2e-07  Score=60.37  Aligned_cols=70  Identities=11%  Similarity=-0.009  Sum_probs=47.6

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCCCchh
Q 027412          131 NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIMPDGL  203 (223)
Q Consensus       131 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  203 (223)
                      ....+..+..++.+.|++++|+..+.++++..+ .+...|..+..++...|++++|+..|++.++  +.|+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p-~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~--l~p~n~  145 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQE--IAPEDK  145 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhh-hhhhHHHhHHHHHHHccCHHHHHHHHHHHHH--hCCCCH
Confidence            344566667777777777777777777776655 3666777777777777777777777777776  345443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.72  E-value=1.3e-07  Score=70.69  Aligned_cols=115  Identities=14%  Similarity=-0.054  Sum_probs=49.9

Q ss_pred             cHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 027412           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIR  175 (223)
Q Consensus        96 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  175 (223)
                      +...+..+...+.+.|+.++|...++......   ...++..++..+...|++++|...|++..+..+ .+...|+.+..
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P-~~~~~~~~Lg~  194 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVP-SNGQPYNQLAI  194 (497)
T ss_dssp             ------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TBSHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CchHHHHHHHH
Confidence            34445555555556666666655555544321   123455566666666666666666666665544 24556666666


Q ss_pred             HHHhcCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhhc
Q 027412          176 GYCKAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQS  215 (223)
Q Consensus       176 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  215 (223)
                      .+...|+..+|...|.+.+... .|-...+..|...+.+.
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHh
Confidence            6666666666666666665532 33444555555554443

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.71  E-value=1.3e-07  Score=58.53  Aligned_cols=76  Identities=18%  Similarity=0.183  Sum_probs=38.5

Q ss_pred             hHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC-----------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 027412          114 KSAFDVYEEMCENNISPNIVSYSILIDGLCKRG-----------LMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGR  182 (223)
Q Consensus       114 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  182 (223)
                      ++|+..|+++.+.+ |.+..+|..+..+|...|           .+++|.+.|++..+..  |+...+..-+..      
T Consensus        58 ~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~--P~~~~~~~~L~~------  128 (145)
T d1zu2a1          58 QEAITKFEEALLID-PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ--PDNTHYLKSLEM------  128 (145)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHH------
T ss_pred             HHHHHHHHHHHHhc-chhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccC--CCHHHHHHHHHH------
Confidence            44555555555443 344445555555554432           3566777777776654  333333322222      


Q ss_pred             cchHHHHHHHHHHCCC
Q 027412          183 PTEAMQLYDSMLRNGI  198 (223)
Q Consensus       183 ~~~a~~~~~~~~~~~~  198 (223)
                      ..+|.+++.+..+.|+
T Consensus       129 ~~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         129 TAKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHTHHHHHHHHHHSSS
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            2456666666666553

>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=98.68  E-value=1.7e-06  Score=55.34  Aligned_cols=72  Identities=11%  Similarity=0.059  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHH
Q 027412           97 VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD-----NHLLPDVVT  169 (223)
Q Consensus        97 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  169 (223)
                      ...+..++.++...|++++|...++.+.... +.+...|..++.++...|+.++|++.|+++.+     .|+.|+..+
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            3456667777777777777777777777664 66677777777777777777777777776642     466666654

>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=98.65  E-value=5.3e-08  Score=66.56  Aligned_cols=120  Identities=10%  Similarity=-0.011  Sum_probs=55.5

Q ss_pred             hcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHH
Q 027412           74 KEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALY  153 (223)
Q Consensus        74 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  153 (223)
                      +.|++++|+..+++.++..|. +...+..+...++..|++++|...++...+.. +.+...+..+...+...+..+++..
T Consensus         8 ~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~~ll~a~~~~~~a~~   85 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARKDFAQ   85 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccHHHHH
Confidence            345555666666555555554 55555555556666666666666555555542 2233333333333333333222222


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 027412          154 AFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLR  195 (223)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  195 (223)
                      ........+..++...+......+...|+.++|..++.++.+
T Consensus        86 ~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          86 GAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             SCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            111111111112223333344445555666666666666554

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.65  E-value=3.1e-07  Score=56.83  Aligned_cols=124  Identities=12%  Similarity=0.097  Sum_probs=66.5

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      +.+.+++|+..|+...+.. |.+..++..+..++...+++..+.+                         ..+.+++|+.
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e-------------------------~~~~~~~Ai~   62 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISD-------------------------AKQMIQEAIT   62 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHH-------------------------HHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhH-------------------------HHHHHHHHHH
Confidence            4455666666666666654 2255566666666554433322211                         1123355666


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhC-----------ChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHH
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQ-----------NMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEAL  152 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  152 (223)
                      .|++.++.+|. +..+|..+..+|...|           .+++|.+.|++..+.  .|+...+..-+..+      .+|.
T Consensus        63 ~~~kAl~l~P~-~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~------~ka~  133 (145)
T d1zu2a1          63 KFEEALLIDPK-KDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT------AKAP  133 (145)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------HTHH
T ss_pred             HHHHHHHhcch-hhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHH------HHHH
Confidence            66666666555 5556666666665543           357788888887774  34444443332222      3455


Q ss_pred             HHHHHHHhCC
Q 027412          153 YAFHCALDNH  162 (223)
Q Consensus       153 ~~~~~~~~~~  162 (223)
                      +++.+..+.|
T Consensus       134 ~~~~e~~k~~  143 (145)
T d1zu2a1         134 QLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHHHSS
T ss_pred             HHHHHHHHHh
Confidence            5555554443

>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=98.63  E-value=2.9e-06  Score=54.24  Aligned_cols=99  Identities=15%  Similarity=0.168  Sum_probs=77.6

Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCC---C------------------cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCC
Q 027412           35 CGYCSLNRLDEAVQLFEKLTCVQLK---P------------------NSITFTILIDAFCKEGRMDDATMMFSKMLEKGP   93 (223)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~~~~~~~~---~------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   93 (223)
                      ......|++++|.+.|.+.......   +                  ....+..+...+...|++++|+..++++.+..+
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P   98 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEHP   98 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCC
Confidence            4555566666666666666543100   0                  124567888999999999999999999999988


Q ss_pred             CccHHHHHHHHHHHHhhCChhHHHHHHHHHH-----HCCCCCChhH
Q 027412           94 KANVVTYSCLIDGYFKSQNMKSAFDVYEEMC-----ENNISPNIVS  134 (223)
Q Consensus        94 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~  134 (223)
                      . +...|..++.++...|++++|++.|+++.     +.|+.|...+
T Consensus        99 ~-~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          99 Y-REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             T-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             c-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            7 89999999999999999999999999875     3588888665

>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=98.63  E-value=9.3e-08  Score=65.32  Aligned_cols=120  Identities=13%  Similarity=0.014  Sum_probs=52.6

Q ss_pred             hcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHH
Q 027412           39 SLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFD  118 (223)
Q Consensus        39 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  118 (223)
                      +.|++++|+..+++..+..+. +...+..++..++..|++++|...++...+..+. +...+..+...+...+..+++..
T Consensus         8 ~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~-~~~~~~~l~~ll~a~~~~~~a~~   85 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQARKDFAQ   85 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhccccHHHHH
Confidence            345555555555555554422 4555555555555555555555555555554443 33333333333332222222211


Q ss_pred             HHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 027412          119 VYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALD  160 (223)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  160 (223)
                      -.......+-+++...+......+...|+.++|.+.++++.+
T Consensus        86 ~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          86 GAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             SCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            111111111112222333334445555666666665555544

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.61  E-value=2.9e-07  Score=68.84  Aligned_cols=114  Identities=12%  Similarity=-0.044  Sum_probs=60.5

Q ss_pred             cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHH
Q 027412           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILID  140 (223)
Q Consensus        61 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  140 (223)
                      +...+..+...+.+.|+.+.|...+.+.....+   ..++..+...+...+++++|...|+++.+.. |.+...|+.++.
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~---~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~  194 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSYIC---QHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAI  194 (497)
T ss_dssp             ------------------------CCHHHHHHH---HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCH---HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHH
Confidence            445566666667777777777766665544321   2456667777777788888888888777764 556677788888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 027412          141 GLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCK  179 (223)
Q Consensus       141 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  179 (223)
                      .+...|+..+|...|.+.+...+ |...++..|...+.+
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~~~-~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAVKF-PFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSSSB-CCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHHH
Confidence            88888888888877777776554 455555555555443

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=98.30  E-value=2.1e-05  Score=48.89  Aligned_cols=90  Identities=13%  Similarity=0.116  Sum_probs=48.1

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCC-c----------cHHHHHHHHHHHHhhCChhHHHHHHHHHHHC-----CCCCC--
Q 027412           70 DAFCKEGRMDDATMMFSKMLEKGPK-A----------NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN-----NISPN--  131 (223)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~-~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~--  131 (223)
                      ..+.+.|++++|+..|++.++..+. |          ....|+.+..+|...|++++|...+++....     ...++  
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            3444556666666666665543221 0          1235556666666666666666666665531     00111  


Q ss_pred             ---hhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412          132 ---IVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       132 ---~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                         ..+++.+..+|...|++++|++.|++..
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence               1234555666666666666666666654

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=98.27  E-value=7.4e-06  Score=51.08  Aligned_cols=98  Identities=13%  Similarity=0.038  Sum_probs=75.0

Q ss_pred             HHHHHH--HHHHHhcCchhHHHHHHHHHHhCCCC-C----------cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcC--
Q 027412           28 ITYNTI--ICGYCSLNRLDEAVQLFEKLTCVQLK-P----------NSITFTILIDAFCKEGRMDDATMMFSKMLEKG--   92 (223)
Q Consensus        28 ~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~~-~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--   92 (223)
                      .+|..+  ...+...|++++|+..|++..+.... |          ....|+.+..+|...|++++|...+++.++..  
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  55677889999999999998764211 1          24578899999999999999999998877531  


Q ss_pred             ---CCc-----cHHHHHHHHHHHHhhCChhHHHHHHHHHHH
Q 027412           93 ---PKA-----NVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (223)
Q Consensus        93 ---~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  125 (223)
                         ..+     ....++.+..+|...|++++|+..|++..+
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               111     123577789999999999999999999875

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.25  E-value=1.7e-05  Score=44.88  Aligned_cols=76  Identities=14%  Similarity=0.046  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHhCC-----CCC-cHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHH
Q 027412           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-----LKP-NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTY  100 (223)
Q Consensus        27 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  100 (223)
                      ...+-.+...+.+.|++++|..+|++..+..     ..+ ...+++.+..++.+.|++++|+..+++.++..|. +..++
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~-~~~a~   83 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE-HQRAN   83 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcC-CHHHH
Confidence            3444566666777777777777777665421     111 2345666777777777777777777777776655 44454


Q ss_pred             HHH
Q 027412          101 SCL  103 (223)
Q Consensus       101 ~~l  103 (223)
                      +.+
T Consensus        84 ~Nl   86 (95)
T d1tjca_          84 GNL   86 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.19  E-value=1.6e-05  Score=44.96  Aligned_cols=62  Identities=11%  Similarity=0.077  Sum_probs=32.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCC-----Cc-cHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           65 FTILIDAFCKEGRMDDATMMFSKMLEKGP-----KA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      +..++..+.+.|++++|+..|++..+..+     .+ ...++..+..++.+.|++++|+..++++++.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            34455555566666666666655544311     01 1234555555555555555555555555554

>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=98.11  E-value=0.0004  Score=46.80  Aligned_cols=177  Identities=17%  Similarity=0.110  Sum_probs=115.6

Q ss_pred             CHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCccHHHHH
Q 027412           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EGRMDDATMMFSKMLEKGPKANVVTYS  101 (223)
Q Consensus        26 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  101 (223)
                      |+..+..|...+.+.+++++|+++|++..+.|   +...+..|...|..    ..++..|...+......+.   +....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhh
Confidence            45677788888889999999999999998875   55667778888876    5688889988888776553   33334


Q ss_pred             HHHHHHHh----hCChhHHHHHHHHHHHCCCC---------------------------------CChhHHHHHHHHHHh
Q 027412          102 CLIDGYFK----SQNMKSAFDVYEEMCENNIS---------------------------------PNIVSYSILIDGLCK  144 (223)
Q Consensus       102 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~---------------------------------~~~~~~~~l~~~~~~  144 (223)
                      .+...+..    ..+.+.|...++.....|..                                 .+...+..+...+..
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~L~~~~~~  154 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDA  154 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhcccccchhhhhhhhhcc
Confidence            44444332    34566677777766554421                                 123334445555543


Q ss_pred             ----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCcchHHHHHHHHHHCCCCCchhhHHHHhhhHhh
Q 027412          145 ----RGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCK----AGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQ  214 (223)
Q Consensus       145 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  214 (223)
                          ..+...+..+++...+.+   +......+...+..    ..++++|..+|.+..+.|   ++..+..|-..|.+
T Consensus       155 ~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~  226 (265)
T d1ouva_         155 GRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYN  226 (265)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHT
T ss_pred             CCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHc
Confidence                345566666666666543   55566666666655    567888999999998875   34444445555543

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.01  E-value=0.00081  Score=47.02  Aligned_cols=166  Identities=14%  Similarity=0.054  Sum_probs=104.2

Q ss_pred             cccccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHH
Q 027412            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (223)
Q Consensus         2 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   81 (223)
                      |.+.|.++.|..+|..+.         -|..++.++.+.+++..|.+++.+..      +..+|..+...+.+......+
T Consensus        24 c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~~~~e~~la   88 (336)
T d1b89a_          24 CYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDGKEFRLA   88 (336)
T ss_dssp             -----CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHHHhCcHHHHH
Confidence            346677777777776443         25667777888888888888776552      566787788888776655433


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDN  161 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  161 (223)
                           .+.......++.....++..|-..|.+++...+++...... +.+...++.++..|++.+ .++..+.+..... 
T Consensus        89 -----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~-  160 (336)
T d1b89a_          89 -----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWS-  160 (336)
T ss_dssp             -----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHST-
T ss_pred             -----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHHHHHHHHhccc-
Confidence                 22222233355566778889999999999999999876543 567778888888888864 4555555544321 


Q ss_pred             CCCCC--------HHHHHHHHHHHHhcCCcchHHHHH
Q 027412          162 HLLPD--------VVTYAILIRGYCKAGRPTEAMQLY  190 (223)
Q Consensus       162 ~~~~~--------~~~~~~l~~~~~~~g~~~~a~~~~  190 (223)
                      ...+.        ...|..++-.|.+.|+++.|..++
T Consensus       161 ~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~  197 (336)
T d1b89a_         161 RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM  197 (336)
T ss_dssp             TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH
Confidence            11111        112455666677777776665443

>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=98.00  E-value=0.00029  Score=42.28  Aligned_cols=111  Identities=14%  Similarity=0.130  Sum_probs=50.2

Q ss_pred             cCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----cCChhHH
Q 027412            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EGRMDDA   81 (223)
Q Consensus         6 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a   81 (223)
                      .++++|+.+|++..+.|..   .....|..  ....+.++|..++++..+.|   ++..+..|...|..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g~~---~a~~~l~~--~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNEM---FGCLSLVS--NSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTCT---THHHHHHT--CTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCCh---hhhhhhcc--ccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHH
Confidence            4566666666666655422   12222221  22344555555555555443   33333444444433    2344555


Q ss_pred             HHHHHHHHhcCCCccHHHHHHHHHHHHh----hCChhHHHHHHHHHHHCC
Q 027412           82 TMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENN  127 (223)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  127 (223)
                      .++|++..+.+   ++.....|...|..    ..+.++|..+|++..+.|
T Consensus        79 ~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          79 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            55555554443   22233334444333    234445555555544443

>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=97.85  E-value=0.00068  Score=40.58  Aligned_cols=110  Identities=18%  Similarity=0.099  Sum_probs=51.3

Q ss_pred             chhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHh----hCChhHHH
Q 027412           42 RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAF  117 (223)
Q Consensus        42 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  117 (223)
                      ++++|+.+|++..+.+..   ..+..|..  ....+.++|++++++..+.|   ++..+..|...|..    ..++++|.
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~~--~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLVS--NSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHHT--CTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhcc--ccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            566677777766665421   12222221  22344555555555555443   23333334444432    23445555


Q ss_pred             HHHHHHHHCCCCCChhHHHHHHHHHHh----cCCHHHHHHHHHHHHhCC
Q 027412          118 DVYEEMCENNISPNIVSYSILIDGLCK----RGLMEEALYAFHCALDNH  162 (223)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  162 (223)
                      .+|++..+.|   ++.....|...|..    ..+.++|.++|++..+.|
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            5555555544   23334444444443    234555555555554444

>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=97.14  E-value=0.018  Score=39.99  Aligned_cols=137  Identities=18%  Similarity=0.181  Sum_probs=92.9

Q ss_pred             CcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHH
Q 027412           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (223)
Q Consensus        24 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (223)
                      .|+..-...++..|.+.|.++.|..+|..+..         |..++..+.+.++++.|.+++.+.      -+..+|..+
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~   75 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEV   75 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHH
Confidence            35666667788889999999999999987642         556778889999999999888754      156789889


Q ss_pred             HHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 027412          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAG  181 (223)
Q Consensus       104 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  181 (223)
                      ...+.+..+...+     .+.......++.....++..|-..|.++....+++...... ..+...++.++..|++.+
T Consensus        76 ~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          76 CFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC
Confidence            9998887666543     22233344566777889999999999999999999876543 357778888999888754

>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=97.01  E-value=0.0095  Score=34.69  Aligned_cols=67  Identities=13%  Similarity=0.104  Sum_probs=35.9

Q ss_pred             ccHHHHHHHHHHHHhhC---ChhHHHHHHHHHHHCCCCCC-hhHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 027412           95 ANVVTYSCLIDGYFKSQ---NMKSAFDVYEEMCENNISPN-IVSYSILIDGLCKRGLMEEALYAFHCALDNH  162 (223)
Q Consensus        95 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  162 (223)
                      ++..+-.....++.++.   +.++++.+|+.+.+.+ +.+ ...+..+.-+|.+.|++++|.+.++.+++..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            34444444555555443   3345666666665543 222 2355556666666666666666666666544

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.78  E-value=0.016  Score=33.66  Aligned_cols=68  Identities=9%  Similarity=0.017  Sum_probs=41.5

Q ss_pred             CCcHHHHHHHHHHHHhc---CChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHHHHHHHC
Q 027412           59 KPNSITFTILIDAFCKE---GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (223)
Q Consensus        59 ~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  126 (223)
                      .|++.+--...-++.+.   ++.++++.+++++.+.++......+-.|..+|.+.|++++|...++.+++.
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            34444444455555544   345567777777776554322345555777777777777777777777774

>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=95.76  E-value=0.058  Score=29.64  Aligned_cols=44  Identities=5%  Similarity=-0.011  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 027412          116 AFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCAL  159 (223)
Q Consensus       116 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  159 (223)
                      +.+-++.+...++-|++.+..+.+.+|.+.+++..|.++++-.+
T Consensus        25 ~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          25 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33344444444444444444444444444444444444444433

>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=95.16  E-value=0.13  Score=29.89  Aligned_cols=68  Identities=13%  Similarity=0.035  Sum_probs=44.7

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHCCCC
Q 027412          131 NIVSYSILIDGLCKRGLMEEALYAFHCALDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSMLRNGIM  199 (223)
Q Consensus       131 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  199 (223)
                      +...+...+.....+|.-++-.+++..+.+.+ +|++...-.+..+|.+.|...++-+++.+..+.|++
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            34455566666677777777777777655533 366666677777777777777777777777777654

>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=95.02  E-value=0.14  Score=29.70  Aligned_cols=124  Identities=11%  Similarity=0.020  Sum_probs=91.6

Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc-CCC----------------ccHHH
Q 027412           37 YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK-GPK----------------ANVVT   99 (223)
Q Consensus        37 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~----------------~~~~~   99 (223)
                      +.-.|..++..+++.+.....   +..-||-++--....-+-+-..++++.+-+. +..                .+...
T Consensus        12 ~ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se~   88 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEH   88 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHH
T ss_pred             HHHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHHH
Confidence            445688999999999887642   4455665665555666777777777776543 111                12234


Q ss_pred             HHHHHHHHHhhCChhHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 027412          100 YSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIVSYSILIDGLCKRGLMEEALYAFHCALDNHLL  164 (223)
Q Consensus       100 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  164 (223)
                      .+..+......|.-+.-.+++..+.+.+ ++++...-.+..+|.+.|...++-+++.++-+.|.+
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            5556777788888888889988877765 888999999999999999999999999999988863

>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=94.44  E-value=0.17  Score=27.78  Aligned_cols=49  Identities=14%  Similarity=0.110  Sum_probs=31.1

Q ss_pred             hhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 027412           43 LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (223)
Q Consensus        43 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   91 (223)
                      .-+..+-++.+......|++......+++|.+.+++..|.++|+-...+
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3345555566655666666666666667776667777777666665544

>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=91.16  E-value=1.8  Score=30.90  Aligned_cols=81  Identities=7%  Similarity=0.004  Sum_probs=38.7

Q ss_pred             CchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCccHHHHHHHHHHHHhhCChhHHHHHH
Q 027412           41 NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY  120 (223)
Q Consensus        41 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  120 (223)
                      +..+.+..++......+.  +.....-.+......+++..+...+..|-.. +.......-=+.+++...|+.+.|...|
T Consensus       266 ~~~~~a~~~~~~~~~~~~--~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~  342 (450)
T d1qsaa1         266 DVTDEQAKWRDDAIMRSQ--STSLIERRVRMALGTGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEIL  342 (450)
T ss_dssp             TCCHHHHHHHHHHHHTCC--CHHHHHHHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CchHHHHHHHHhhccccc--chHHHHHHHHHHHHcCChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHH
Confidence            444555555555444322  2222222333344556666666666555322 1112222233556666666666666666


Q ss_pred             HHHH
Q 027412          121 EEMC  124 (223)
Q Consensus       121 ~~~~  124 (223)
                      ..+.
T Consensus       343 ~~~a  346 (450)
T d1qsaa1         343 HQLM  346 (450)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            6553

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.03  E-value=3.4  Score=23.74  Aligned_cols=23  Identities=13%  Similarity=0.431  Sum_probs=13.8

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHH
Q 027412           66 TILIDAFCKEGRMDDATMMFSKM   88 (223)
Q Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~   88 (223)
                      ..++.-|...++.++|...++++
T Consensus        11 ~~ll~EY~~~~D~~Ea~~~l~eL   33 (129)
T d2nsza1          11 DMLLKEYLLSGDISEAEHCLKEL   33 (129)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHc
Confidence            44555566666666666666655

>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=80.71  E-value=7.5  Score=27.52  Aligned_cols=171  Identities=10%  Similarity=-0.036  Sum_probs=108.3

Q ss_pred             cccCHHHHHHHHHHHhhCCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCChhHHHH
Q 027412            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (223)
Q Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   83 (223)
                      ..+..+.+...+......+  .+.....-.+......+++..+...+..+.... ........-+..++...|+.+.|..
T Consensus       264 ~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~  340 (450)
T d1qsaa1         264 GNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKE  340 (450)
T ss_dssp             STTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHHHHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHH
Confidence            4556677777777766553  244444445556677889999999999886432 2234444568899999999999999


Q ss_pred             HHHHHHhcCCCccHHHHHHHHHHHHhhCCh-hHHHHHHHHHHHCCCCCCh----hHHHHHHHHHHhcCCHHHHHHHHHHH
Q 027412           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNM-KSAFDVYEEMCENNISPNI----VSYSILIDGLCKRGLMEEALYAFHCA  158 (223)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~  158 (223)
                      .|......   ++  .|..|...  +.|.. .-..      ......+..    ..-...+..+...|+...|...+..+
T Consensus       341 ~~~~~a~~---~~--fYG~LAa~--~Lg~~~~~~~------~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l  407 (450)
T d1qsaa1         341 ILHQLMQQ---RG--FYPMVAAQ--RIGEEYELKI------DKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANL  407 (450)
T ss_dssp             HHHHHHTS---CS--HHHHHHHH--HTTCCCCCCC------CCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhcC---CC--hHHHHHHH--HcCCCCCCCc------CCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHH
Confidence            99988642   23  44433322  22221 1000      000000010    01113356677889999999999888


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCcchHHHHHHHH
Q 027412          159 LDNHLLPDVVTYAILIRGYCKAGRPTEAMQLYDSM  193 (223)
Q Consensus       159 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  193 (223)
                      ...   .+......+.....+.|.++.|+....+.
T Consensus       408 ~~~---~~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         408 VKS---KSKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             HTT---CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HhC---CCHHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence            754   35666778888889999999999877665

>d1h6pa_ a.146.1.1 (A:) TRF2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Telomeric repeat binding factor (TRF) dimerisation domain
superfamily: Telomeric repeat binding factor (TRF) dimerisation domain
family: Telomeric repeat binding factor (TRF) dimerisation domain
domain: TRF2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.23  E-value=4.3  Score=25.15  Aligned_cols=19  Identities=11%  Similarity=0.137  Sum_probs=9.7

Q ss_pred             HHHhcCchhHHHHHHHHHH
Q 027412           36 GYCSLNRLDEAVQLFEKLT   54 (223)
Q Consensus        36 ~~~~~~~~~~a~~~~~~~~   54 (223)
                      .|.+.|.+++|.+++++..
T Consensus       122 VCmekg~Fk~A~eil~r~f  140 (203)
T d1h6pa_         122 ICIKNKEFEKASKILKKHM  140 (203)
T ss_dssp             HHHHTTCHHHHHHHHHHHC
T ss_pred             HHHHhcchHHHHHHHHHHh
Confidence            4445555555555555443