Citrus Sinensis ID: 030489

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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------
Protein Sequence
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHCI
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHccccHHHcc
Coil and Loop (DISEMBL)
MLIKECHLDAALKLFGQLtdrglepdiityNTIICGYCSLNRLDEAVQLFEKLTcvqlkpnsiTFTILIDAFCKEGRMDDATMMFSKMLekgpkanvvTYSCLIDGYFKSQNMKSAFDVYEEMCennispniagrptEAMQLYDSMLrngimpdglLLSTLAdynlqssgsqehci
Flexible Loop (DISEMBL)
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTcvqlkpnsitFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADynlqssgsqehci
Low Complexity Region (SEG)
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHCI
Disordered region (IsUnstruct)
**IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADY************
Disordered Region (DISOPRED)
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHCI
Disordered Region (DISEMBL)
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNL**********
Disordered Region (DISPRO)
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQ****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHCI
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	176	2.2.26 [Sep-21-2011]
Q9C6S6	840	Putative pentatricopeptid	yes	no	0.982	0.205	0.4	2e-37
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.892	0.210	0.319	9e-25
Q9SH26	577	Pentatricopeptide repeat-	no	no	0.926	0.282	0.320	2e-24
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.909	0.215	0.354	2e-24
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.948	0.259	0.312	3e-24
Q9LQ16	632	Pentatricopeptide repeat-	no	no	0.869	0.242	0.327	1e-23
Q9CAN5	614	Pentatricopeptide repeat-	no	no	0.914	0.262	0.318	5e-23
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.869	0.242	0.321	7e-23
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.926	0.258	0.309	8e-23
O04491	607	Putative pentatricopeptid	no	no	0.909	0.263	0.308	1e-22

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

 Score =  155 bits (391), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 90/225 (40%), Positives = 115/225 (51%), Gaps = 52/225 (23%)

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 EEMCENNISPNI-----------------------------------------------A 133
           EEM E  ISP+I                                                
Sbjct: 730 EEMQEKGISPSIVSYSIIIDGLCKRGRVDEATNIFHQAIDAKLLPDVVAYAILIRGYCKV 789

Query: 134 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN----LQSSGSQEH 174
           GR  EA  LY+ MLRNG+ PD LL   L++YN    L S G   H
Sbjct: 790 GRLVEAALLYEHMLRNGVKPDDLLQRALSEYNPPKWLMSKGVWVH 834

Arabidopsis thaliana (taxid: 3702)

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

 Score =  112 bits (281), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 54/169 (31%), Positives = 94/169 (55%), Gaps = 12/169 (7%)

Query: 7   HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFT 66
           ++D AL LF ++  +G  P+++TYNT+I GYC L ++D+  +L   +    L+PN I++ 
Sbjct: 220 NIDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDGFKLLRSMALKGLEPNLISYN 279

Query: 67  ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN 126
           ++I+  C+EGRM + + + ++M  +G   + VTY+ LI GY K  N   A  ++ EM  +
Sbjct: 280 VVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGYCKEGNFHQALVMHAEMLRH 339

Query: 127 NISPNI------------AGRPTEAMQLYDSMLRNGIMPDGLLLSTLAD 163
            ++P++            AG    AM+  D M   G+ P+    +TL D
Sbjct: 340 GLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNERTYTTLVD 388

Arabidopsis thaliana (taxid: 3702)

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

 Score =  112 bits (279), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 58/181 (32%), Positives = 102/181 (56%), Gaps = 18/181 (9%)

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 EMCENNISPNIA------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSS 169
           +M  + + PNI             G+  +AM +++ + R+ + P      T+  YN+   
Sbjct: 460 QMVSDGVHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEP------TIYTYNIMIE 513

Query: 170 G 170
           G
Sbjct: 514 G 514

Arabidopsis thaliana (taxid: 3702)

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

 Score =  111 bits (277), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 61/172 (35%), Positives = 95/172 (55%), Gaps = 12/172 (6%)

Query: 4   KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI 63
           K   + AA K F ++  R + PD++TY  II G+C +  + EA +LF ++ C  L+P+S+
Sbjct: 363 KRGDIRAASKFFYEMHSRDITPDVLTYTAIISGFCQIGDMVEAGKLFHEMFCKGLEPDSV 422

Query: 64  TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM 123
           TFT LI+ +CK G M DA  + + M++ G   NVVTY+ LIDG  K  ++ SA ++  EM
Sbjct: 423 TFTELINGYCKAGHMKDAFRVHNHMIQAGCSPNVVTYTTLIDGLCKEGDLDSANELLHEM 482

Query: 124 CENNISPNI------------AGRPTEAMQLYDSMLRNGIMPDGLLLSTLAD 163
            +  + PNI            +G   EA++L       G+  D +  +TL D
Sbjct: 483 WKIGLQPNIFTYNSIVNGLCKSGNIEEAVKLVGEFEAAGLNADTVTYTTLMD 534

Arabidopsis thaliana (taxid: 3702)

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

 Score =  111 bits (277), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 56/179 (31%), Positives = 98/179 (54%), Gaps = 12/179 (6%)

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 EMCENNISPNI------------AGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQS 168
            M      P+I            A R  + ++L+  M   G++ + +  +TL     QS
Sbjct: 393 LMISKGCDPDIMTFNILINGYCKANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQS 451

Arabidopsis thaliana (taxid: 3702)

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

 Score =  109 bits (272), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 54/165 (32%), Positives = 96/165 (58%), Gaps = 12/165 (7%)

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 EMCENNISPNIA------------GRPTEAMQLYDSMLRNGIMPD 154
           +M    + PNI             G+  +AM +++ + R+ + PD
Sbjct: 458 QMVSVGVHPNILTYNILLDGLCKNGKLAKAMVVFEYLQRSTMEPD 502

Arabidopsis thaliana (taxid: 3702)

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

 Score =  107 bits (266), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 57/179 (31%), Positives = 99/179 (55%), Gaps = 18/179 (10%)

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 CENNISPNIA------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSG 170
             + + PNI             G+  +AM +++ + ++ + PD      +  YN+ S G
Sbjct: 442 VSDGVHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPD------IYTYNIMSEG 494

Arabidopsis thaliana (taxid: 3702)

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

 Score =  106 bits (265), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 53/165 (32%), Positives = 94/165 (56%), Gaps = 12/165 (7%)

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 EMCENNISPNIA------------GRPTEAMQLYDSMLRNGIMPD 154
           +M  + + P+I             G+   A+ +++ + R+ + PD
Sbjct: 456 QMVSDGVLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPD 500

Arabidopsis thaliana (taxid: 3702)

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

 Score =  106 bits (264), Expect = 8e-23,   Method: Compositional matrix adjust.
 Identities = 56/181 (30%), Positives = 100/181 (55%), Gaps = 18/181 (9%)

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 EMCENNISPNIA------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSS 169
           EM  + + PNI             G+  +AM +++ + R+ + P      T+  YN+   
Sbjct: 456 EMVSDGVPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEP------TIYTYNIMIE 509

Query: 170 G 170
           G
Sbjct: 510 G 510

Arabidopsis thaliana (taxid: 3702)

>sp|O04491|PPR26_ARATH Putative pentatricopeptide repeat-containing protein At1g09680 OS=Arabidopsis thaliana GN=At1g09680 PE=3 SV=1

 Score =  105 bits (263), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 53/172 (30%), Positives = 95/172 (55%), Gaps = 12/172 (6%)

Query: 4   KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI 63
           KE ++  A K+F ++T R L+P ++++NT+I GYC +  LDE  +L  ++   + +P+  
Sbjct: 252 KEGNISDAQKVFDEITKRSLQPTVVSFNTLINGYCKVGNLDEGFRLKHQMEKSRTRPDVF 311

Query: 64  TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM 123
           T++ LI+A CKE +MD A  +F +M ++G   N V ++ LI G+ ++  +    + Y++M
Sbjct: 312 TYSALINALCKENKMDGAHGLFDEMCKRGLIPNDVIFTTLIHGHSRNGEIDLMKESYQKM 371

Query: 124 CENNISPNIA------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLAD 163
               + P+I             G    A  + D M+R G+ PD +  +TL D
Sbjct: 372 LSKGLQPDIVLYNTLVNGFCKNGDLVAARNIVDGMIRRGLRPDKITYTTLID 423

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	176
224135613	854	predicted protein [Populus trichocarpa]	0.977	0.201	0.486	8e-51
296088470	822	unnamed protein product [Vitis vinifera]	0.977	0.209	0.452	8e-48
225427506	1131	PREDICTED: putative pentatricopeptide re	0.960	0.149	0.458	9e-48
240254191	840	pentatricopeptide (PPR) repeat-containin	0.982	0.205	0.4	8e-36
334182978	811	pentatricopeptide (PPR) repeat-containin	0.982	0.213	0.4	8e-36
449521772	645	PREDICTED: pentatricopeptide repeat-cont	0.869	0.237	0.406	9e-27
357499959	652	Pentatricopeptide repeat-containing prot	0.954	0.257	0.331	1e-26
357499975	590	Pentatricopeptide repeat-containing prot	0.954	0.284	0.331	3e-26
356529489	550	PREDICTED: pentatricopeptide repeat-cont	0.926	0.296	0.363	7e-26
224130828	617	predicted protein [Populus trichocarpa]	0.920	0.262	0.315	2e-25

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

 Score =  204 bits (520), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 107/220 (48%), Positives = 136/220 (61%), Gaps = 48/220 (21%)

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 MCENNISPNI-----------------------------------------------AGR 135
           M ENNI+PNI                                                GR
Sbjct: 754 MLENNIAPNIVSYSILIDGLCKRGLMKEASCAFRCALDKHLLPDVIAYTILIRGYCKVGR 813

Query: 136 PTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHC 175
            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|296088470|emb|CBI37461.3| unnamed protein product [Vitis vinifera]

 Score =  195 bits (495), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 99/219 (45%), Positives = 132/219 (60%), Gaps = 47/219 (21%)

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 EEMCENNISPNI-----------------------------------------------A 133
           E+M  + +SPNI                                                
Sbjct: 719 EKMLGDRVSPNIVSYSILIDGLCKKGLMEEASLAFQCAIGRHLLPDVIAYGILIRGYCKV 778

Query: 134 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQ 172
           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|225427506|ref|XP_002263778.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g31840-like [Vitis vinifera]

 Score =  194 bits (494), Expect = 9e-48,   Method: Compositional matrix adjust.
 Identities = 99/216 (45%), Positives = 130/216 (60%), Gaps = 47/216 (21%)

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 EEMCENNISPNI-----------------------------------------------A 133
           E+M  + +SPNI                                                
Sbjct: 719 EKMLGDRVSPNIVSYSILIDGLCKKGLMEEASLAFQCAIGRHLLPDVIAYGILIRGYCKV 778

Query: 134 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSS 169
           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|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 =  155 bits (391), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 90/225 (40%), Positives = 115/225 (51%), Gaps = 52/225 (23%)

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 EEMCENNISPNI-----------------------------------------------A 133
           EEM E  ISP+I                                                
Sbjct: 730 EEMQEKGISPSIVSYSIIIDGLCKRGRVDEATNIFHQAIDAKLLPDVVAYAILIRGYCKV 789

Query: 134 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN----LQSSGSQEH 174
           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|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 =  155 bits (391), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 90/225 (40%), Positives = 115/225 (51%), Gaps = 52/225 (23%)

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 EEMCENNISPNI-----------------------------------------------A 133
           EEM E  ISP+I                                                
Sbjct: 701 EEMQEKGISPSIVSYSIIIDGLCKRGRVDEATNIFHQAIDAKLLPDVVAYAILIRGYCKV 760

Query: 134 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN----LQSSGSQEH 174
           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|449521772|ref|XP_004167903.1| PREDICTED: pentatricopeptide repeat-containing protein At5g61400-like [Cucumis sativus]

 Score =  125 bits (313), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 67/165 (40%), Positives = 100/165 (60%), Gaps = 12/165 (7%)

Query: 11  ALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILID 70
           A+ LF +L    + PD+ TY+ +I G CS++R +EA  +FEK+T   +  NS+T+  LID
Sbjct: 341 AMALFLELERFEVSPDVFTYSILIRGLCSVSRTEEAGNIFEKMTKEGILANSVTYNSLID 400

Query: 71  AFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP 130
             CKEG+MD A  + S+M E G + NV+T+S LIDGY K +N+++A  +Y EM   ++SP
Sbjct: 401 GCCKEGKMDKALEICSQMTENGVEPNVITFSTLIDGYCKIRNLQAAMGIYSEMVIKSLSP 460

Query: 131 NIA------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLAD 163
           ++             G   EA++LY  ML NGI P+   +S L D
Sbjct: 461 DVVTYTAMIDGHCKYGSMKEALKLYSDMLDNGITPNCYTISCLLD 505

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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 =  124 bits (311), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 60/181 (33%), Positives = 104/181 (57%), Gaps = 13/181 (7%)

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 ISPNIAG------------RPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHC 175
           ++P+I              +  EAM L+  M R  I+PD +  S+L D  L  SG   + 
Sbjct: 361 VNPDIQSYSIMINGFCKIKKFDEAMNLFKEMHRKNIIPDVVTYSSLID-GLSKSGRISYA 419

Query: 176 I 176
           +
Sbjct: 420 L 420

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 =  123 bits (309), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 60/181 (33%), Positives = 103/181 (56%), Gaps = 13/181 (7%)

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 ISPNIAG------------RPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHC 175
           ++P+I              +  EAM L+  M R  I+PD +  S+L D  L  SG   + 
Sbjct: 361 VNPDIQSYSIMINGFCKIKKFDEAMNLFKEMHRKNIIPDVVTYSSLID-GLSKSGRISYA 419

Query: 176 I 176
           +
Sbjct: 420 L 420

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356529489|ref|XP_003533323.1| PREDICTED: pentatricopeptide repeat-containing protein At1g12300, mitochondrial-like [Glycine max]

 Score =  122 bits (305), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 64/176 (36%), Positives = 98/176 (55%), Gaps = 13/176 (7%)

Query: 11  ALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILID 70
           A KLF    + G+ PD+ +YN +I GYC  NR+DEA+ LF K+   +L PN +T++ LID
Sbjct: 342 ARKLFDTFAECGITPDVWSYNILIIGYCKNNRIDEALSLFNKMNYKKLAPNIVTYSSLID 401

Query: 71  AFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP 130
             CK GR+  A  +FS + + GP  NV+TY+ ++D   K Q +  A +++  M E  ++P
Sbjct: 402 GLCKSGRISYAWELFSAIHDGGPSPNVITYNIMLDALCKIQLVDKAIELFNLMFERGLTP 461

Query: 131 NIAG------------RPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH 174
           N++             R  EAM L++ M R  ++PD +  + L D  L  SG   H
Sbjct: 462 NVSSYNILINGYCKSKRIDEAMNLFEEMHRRNLVPDSVTYNCLID-GLCKSGRISH 516

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  120 bits (301), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 66/209 (31%), Positives = 108/209 (51%), Gaps = 47/209 (22%)

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

Query: 62  SITFTILIDAFCKEG-----------------------------------RMDDATMMFS 86
           ++TF IL+D  CKEG                                   +MD+A  +  
Sbjct: 306 TVTFNILVDGLCKEGMVSEARCVSETMTEKGAEPNAYTYNALMDGYCLHNQMDEAIKVLG 365

Query: 87  KMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI------------AG 134
            M+ KG   N+ +Y+ LI+GY KS+ M  A  +  EM E N++P+              G
Sbjct: 366 IMIGKGCAPNLSSYNILINGYCKSKRMNEAKRLLSEMSEKNLTPDTVTYSTLMQGLCQVG 425

Query: 135 RPTEAMQLYDSMLRNGIMPDGLLLSTLAD 163
           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

---

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	176
TAIR|locus:2034528	840	AT1G31840 [Arabidopsis thalian	0.869	0.182	0.445	5.1e-31
TAIR|locus:2031301	577	AT1G63400 [Arabidopsis thalian	0.863	0.263	0.346	1.1e-22
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.892	0.210	0.319	1.6e-22
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.948	0.259	0.312	3.2e-22
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.863	0.241	0.333	2.8e-21
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.863	0.241	0.346	2.8e-21
TAIR|locus:2015228	614	AT1G63080 [Arabidopsis thalian	0.857	0.245	0.341	4.4e-21
TAIR|locus:2015213	629	AT1G63150 [Arabidopsis thalian	0.892	0.249	0.371	1.3e-20
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.829	0.235	0.333	1.6e-20
TAIR|locus:504956171	650	ABO5 "ABA Overly-Sensitive 5"	0.869	0.235	0.347	1.7e-20

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

 Score = 351 (128.6 bits), Expect = 5.1e-31, P = 5.1e-31
 Identities = 74/166 (44%), Positives = 100/166 (60%)

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 EEMCENNISPNIA------------GRPTEAMQLYDSMLRNGIMPD 154
             EEM E  ISP+I             GR  EA  ++   +   ++PD
Sbjct:   730 EEMQEKGISPSIVSYSIIIDGLCKRGRVDEATNIFHQAIDAKLLPD 775

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 270 (100.1 bits), Expect = 1.1e-22, P = 1.1e-22
 Identities = 54/156 (34%), Positives = 94/156 (60%)

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 MCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLL 158
             M  + + PNI    T    L D + +NG +   +++
Sbjct:   461 MVSDGVHPNIMTYNT----LLDGLCKNGKLEKAMVV 492

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 271 (100.5 bits), Expect = 1.6e-22, P = 1.6e-22
 Identities = 54/169 (31%), Positives = 94/169 (55%)

Query:     7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFT 66
             ++D AL LF ++  +G  P+++TYNT+I GYC L ++D+  +L   +    L+PN I++ 
Sbjct:   220 NIDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDGFKLLRSMALKGLEPNLISYN 279

Query:    67 ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN 126
             ++I+  C+EGRM + + + ++M  +G   + VTY+ LI GY K  N   A  ++ EM  +
Sbjct:   280 VVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGYCKEGNFHQALVMHAEMLRH 339

Query:   127 NISPNI------------AGRPTEAMQLYDSMLRNGIMPDGLLLSTLAD 163
              ++P++            AG    AM+  D M   G+ P+    +TL D
Sbjct:   340 GLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNERTYTTLVD 388

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

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

 Score = 267 (99.0 bits), Expect = 3.2e-22, P = 3.2e-22
 Identities = 56/179 (31%), Positives = 98/179 (54%)

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 EMCENNISPNI------------AGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQS 168
              M      P+I            A R  + ++L+  M   G++ + +  +TL     QS
Sbjct:   393 LMISKGCDPDIMTFNILINGYCKANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQS 451

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 258 (95.9 bits), Expect = 2.8e-21, P = 2.8e-21
 Identities = 52/156 (33%), Positives = 92/156 (58%)

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 MCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLL 158
             M  + + PNI    T    L D + +NG +   +++
Sbjct:   457 MVSDGVPPNIMTYNT----LLDGLCKNGKLEKAMVV 488

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

GO:0003723 "RNA binding" evidence=IDA

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

 Score = 258 (95.9 bits), Expect = 2.8e-21, P = 2.8e-21
 Identities = 54/156 (34%), Positives = 93/156 (59%)

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 MCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLL 158
             M  + + P+I    T ++ L D +  NG +   L++
Sbjct:   457 MVSDGVLPDIM---TYSI-LLDGLCNNGKVETALVV 488

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 256 (95.2 bits), Expect = 4.4e-21, P = 4.4e-21
 Identities = 53/155 (34%), Positives = 90/155 (58%)

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 CENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLL 158
               + + PNI    T    L D + +NG +   +++
Sbjct:   442 VSDGVHPNIMTYNT----LLDGLCKNGKLEKAMVV 472

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015213 AT1G63150 [Arabidopsis thaliana (taxid:3702)]

 Score = 252 (93.8 bits), Expect = 1.3e-20, P = 1.3e-20
 Identities = 62/167 (37%), Positives = 95/167 (56%)

Query:     4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI 63
             KE  L  A KL  ++  R ++PD ITYN +I G+C  NRLDEA Q+F+ +      PN  
Sbjct:   340 KEGKLVEAEKLHEEMIQRSIDPDTITYNLLINGFCMHNRLDEAKQMFKFMVSKDCLPNIQ 399

Query:    64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM 123
             T+  LI+ FCK  R++D   +F +M ++G   N VTY+ +I G+F++ +  SA  V+++M
Sbjct:   400 TYNTLINGFCKCKRVEDGVELFREMSQRGLVGNTVTYTTIIQGFFQAGDCDSAQMVFKQM 459

Query:   124 CENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN-LQSS 169
               N +       PT+ M  Y S+L +G+   G L + L  +  LQ S
Sbjct:   460 VSNRV-------PTDIMT-Y-SILLHGLCSYGKLDTALVIFKYLQKS 497

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 251 (93.4 bits), Expect = 1.6e-20, P = 1.6e-20
 Identities = 50/150 (33%), Positives = 91/150 (60%)

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 EEMCENNISPNIAGRPTEAMQLYDSMLRNG 150
             +EM    + P++    T  + L D +  NG
Sbjct:   444 QEMVSRGVPPSVV---TYGI-LLDGLCDNG 469

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:504956171 ABO5 "ABA Overly-Sensitive 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 251 (93.4 bits), Expect = 1.7e-20, P = 1.7e-20
 Identities = 58/167 (34%), Positives = 91/167 (54%)

Query:    14 LFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFC 73
             LF ++   G  PDI TYN +I  +  +  +DEA+ +FE+L     KP+ I++  LI+   
Sbjct:   464 LFEKMKKDGPSPDIFTYNILIASFGRVGEVDEAINIFEELERSDCKPDIISYNSLINCLG 523

Query:    74 KEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA 133
             K G +D+A + F +M EKG   +VVTYS L++ + K++ ++ A+ ++EEM      PNI 
Sbjct:   524 KNGDVDEAHVRFKEMQEKGLNPDVVTYSTLMECFGKTERVEMAYSLFEEMLVKGCQPNIV 583

Query:   134 ------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQS 168
                         GR  EA+ LY  M + G+ PD +  + L    LQS
Sbjct:   584 TYNILLDCLEKNGRTAEAVDLYSKMKQQGLTPDSITYTVLE--RLQS 628

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008380 "RNA splicing" evidence=IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

---

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	176
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-16
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-12
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-10
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-10
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-10
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-09
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-07
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-07
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-07
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-06
pfam01535	31	pfam01535, PPR, PPR repeat	1e-06
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-06
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	1e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-05
pfam01535	31	pfam01535, PPR, PPR repeat	7e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
pfam01535	31	pfam01535, PPR, PPR repeat	2e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.001
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.002

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

 Score = 72.1 bits (178), Expect = 1e-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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 67.8 bits (167), Expect = 4e-16
 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 = 63.0 bits (153), Expect = 5e-12
 Identities = 29/125 (23%), Positives = 62/125 (49%)

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 ISPNI 132
           I PN+
Sbjct: 785 IKPNL 789

Length = 1060

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

 Score = 60.7 bits (147), Expect = 3e-11
 Identities = 28/94 (29%), Positives = 51/94 (54%)

Query: 11  ALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILID 70
           AL+L+  +    L P + T N +I   C  N+L +A+++  ++  + L PN+IT++IL+ 
Sbjct: 703 ALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV 762

Query: 71  AFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI 104
           A  ++   D    + S+  E G K N+V   C+ 
Sbjct: 763 ASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT 796

Length = 1060

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

 Score = 54.7 bits (133), Expect = 5e-11
 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 53.9 bits (131), Expect = 9e-11
 Identities = 16/37 (43%), Positives = 24/37 (64%)

Query: 96  NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI 132
           +VVTY+ LIDGY K   ++ A  ++ EM +  I PN+
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNV 38

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 = 58.3 bits (141), Expect = 2e-10
 Identities = 44/180 (24%), Positives = 83/180 (46%), Gaps = 18/180 (10%)

Query: 2   LIKEC----HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ 57
           LI  C     +DA  ++F ++ + G+E ++ T+  +I G     ++ +A   +  +    
Sbjct: 478 LISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKN 537

Query: 58  LKPNSITFTILIDAFCKEGRMDDATMMFSKM-LEKGP-KANVVTYSCLIDGYFKSQNMKS 115
           +KP+ + F  LI A  + G +D A  + ++M  E  P   + +T   L+     +  +  
Sbjct: 538 VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDR 597

Query: 116 AFDVYEEMCENNI--SPNI----------AGRPTEAMQLYDSMLRNGIMPDGLLLSTLAD 163
           A +VY+ + E NI  +P +           G    A+ +YD M + G+ PD +  S L D
Sbjct: 598 AKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVD 657

Length = 1060

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

 Score = 57.6 bits (139), Expect = 3e-10
 Identities = 41/161 (25%), Positives = 81/161 (50%), Gaps = 12/161 (7%)

Query: 1   MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
           M  K   +D AL++F  + ++    D+I++ +II G    NR  EA+  F ++  + LKP
Sbjct: 433 MYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKP 487

Query: 61  NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY 120
           NS+T    + A  + G +     + + +L  G   +    + L+D Y +   M  A++ +
Sbjct: 488 NSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF 547

Query: 121 EEMCENNISPNI-------AGRPTEAMQLYDSMLRNGIMPD 154
               ++ +S NI        G+ + A++L++ M+ +G+ PD
Sbjct: 548 NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPD 588

Length = 857

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

 Score = 52.0 bits (126), Expect = 4e-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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 55.6 bits (134), Expect = 1e-09
 Identities = 38/155 (24%), Positives = 79/155 (50%), Gaps = 12/155 (7%)

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

Query: 68  LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN 127
           +I  F +   ++ A    + ++  G   ++V  + L+D Y K   M+ A +V++ M   N
Sbjct: 331 MIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKN 390

Query: 128 -ISPN--IA-----GRPTEAMQLYDSMLRNGIMPD 154
            IS N  IA     GR T+A+++++ M+  G+ P+
Sbjct: 391 LISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPN 425

Length = 697

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

 Score = 54.9 bits (132), Expect = 3e-09
 Identities = 31/109 (28%), Positives = 54/109 (49%)

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

Query: 83  MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN 131
            +F +M+  G +ANV T+  LIDG  ++  +  AF  Y  M   N+ P+
Sbjct: 493 EVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPD 541

Length = 1060

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

 Score = 51.8 bits (124), Expect = 4e-08
 Identities = 25/101 (24%), Positives = 52/101 (51%), Gaps = 1/101 (0%)

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

Query: 84  MFSKMLEK-GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM 123
            F  M EK     N+  Y+C++D   ++  +  A++   +M
Sbjct: 611 YFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651

Length = 857

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

 Score = 50.6 bits (121), Expect = 9e-08
 Identities = 37/166 (22%), Positives = 68/166 (40%), Gaps = 43/166 (25%)

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----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPD 388

Length = 857

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

 Score = 46.2 bits (111), Expect = 1e-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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 49.9 bits (119), Expect = 1e-07
 Identities = 23/81 (28%), Positives = 44/81 (54%), Gaps = 1/81 (1%)

Query: 26  DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMF 85
           ++I++N +I GY +  R  +AV++FE++    + PN +TF  ++ A    G  +    +F
Sbjct: 390 NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIF 449

Query: 86  SKMLE-KGPKANVVTYSCLID 105
             M E    K   + Y+C+I+
Sbjct: 450 QSMSENHRIKPRAMHYACMIE 470

Length = 697

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

 Score = 49.9 bits (119), Expect = 2e-07
 Identities = 38/159 (23%), Positives = 66/159 (41%), Gaps = 12/159 (7%)

Query: 11  ALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILID 70
           A +LF ++ +R    ++ ++ TII G        EA  LF ++          TF +++ 
Sbjct: 177 ARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLR 232

Query: 71  AFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE----- 125
           A    G       +   +L+ G   +      LID Y K  +++ A  V++ M E     
Sbjct: 233 ASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVA 292

Query: 126 -NNISPNIA--GRPTEAMQLYDSMLRNGIMPDGLLLSTL 161
            N++    A  G   EA+ LY  M  +G+  D    S +
Sbjct: 293 WNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIM 331

Length = 697

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

 Score = 43.5 bits (104), Expect = 6e-07
 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 = 6e-07
 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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 47.5 bits (113), Expect = 8e-07
 Identities = 34/149 (22%), Positives = 66/149 (44%), Gaps = 12/149 (8%)

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 NI---SPNIAG-----RPTEAMQLYDSML 147
           ++   +  IAG     R  EA+  +  ML
Sbjct: 454 DVISWTSIIAGLRLNNRCFEALIFFRQML 482

Length = 857

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

 Score = 47.2 bits (112), Expect = 1e-06
 Identities = 39/177 (22%), Positives = 80/177 (45%), Gaps = 18/177 (10%)

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 FDVYEEMCENNISPNI------------AGRPTEAMQLYDSMLRNGIMPDGLLLSTL 161
            ++YE++    + P +              +  +A+++   M R G+ P+ +  S L
Sbjct: 704 LELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSIL 760

Length = 1060

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

 Score = 42.8 bits (102), Expect = 1e-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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 46.4 bits (110), Expect = 2e-06
 Identities = 32/167 (19%), Positives = 71/167 (42%), Gaps = 43/167 (25%)

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  SKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI 132
            +M    P+ + ++++ +I GYF++       +++  M E ++ P++
Sbjct: 246 DRM----PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDL 288

Length = 857

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

 Score = 40.9 bits (97), Expect = 7e-06
 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 = 40.2 bits (95), Expect = 1e-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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 44.1 bits (104), Expect = 2e-05
 Identities = 35/170 (20%), Positives = 75/170 (44%), Gaps = 18/170 (10%)

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 AFDVYEEMCENNISPNI------------AGRPTEAMQLYDSMLRNGIMP 153
           AF++ ++  +  I                A    +A++LY+ +    + P
Sbjct: 668 AFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRP 717

Length = 1060

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

 Score = 38.2 bits (90), Expect = 7e-05
 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 = 37.8 bits (89), Expect = 1e-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 = 2e-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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 39.5 bits (92), Expect = 5e-04
 Identities = 43/172 (25%), Positives = 68/172 (39%), Gaps = 22/172 (12%)

Query: 3   IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNR-LDEAVQLFEKLTCVQLKPN 61
           IK+C     + L   +  RGL      Y+      C   R + EA + F KL      P 
Sbjct: 386 IKDC-----IDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFR-FAKLI---RNPT 436

Query: 62  SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYE 121
             TF +L+        +D A  +   + E G KA+   Y+ LI    KS  + + F+V+ 
Sbjct: 437 LSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFH 496

Query: 122 EMCENNISPNI------------AGRPTEAMQLYDSMLRNGIMPDGLLLSTL 161
           EM    +  N+            AG+  +A   Y  M    + PD ++ + L
Sbjct: 497 EMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNAL 548

Length = 1060

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

 Score = 38.3 bits (89), Expect = 0.001
 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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 37.9 bits (88), Expect = 0.001
 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 34.1 bits (79), Expect = 0.002
 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	176
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	99.97
PLN03077	857	Protein ECB2; Provisional	99.97
PF13041	50	PPR_2: PPR repeat family	99.68
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.68
PF13041	50	PPR_2: PPR repeat family	99.67
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.66
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.58
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.57
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.48
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.46
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.44
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.43
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.4
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.38
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.38
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.37
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.37
PRK12370	553	invasion protein regulator; Provisional	99.31
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.3
KOG1126	638	consensus DNA-binding cell division cycle control	99.3
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.28
PRK12370	553	invasion protein regulator; Provisional	99.27
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.25
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.25
PF12854	34	PPR_1: PPR repeat	99.22
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.21
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.2
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.2
PF12854	34	PPR_1: PPR repeat	99.19
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.17
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.15
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.15
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.15
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.12
PRK11189	296	lipoprotein NlpI; Provisional	99.11
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.1
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.09
KOG1129	478	consensus TPR repeat-containing protein [General f	99.08
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.07
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.06
KOG1129	478	consensus TPR repeat-containing protein [General f	99.06
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.04
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.03
PRK14574	822	hmsH outer membrane protein; Provisional	99.02
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.0
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.99
PRK15359	144	type III secretion system chaperone protein SscB;	98.97
PRK14574	822	hmsH outer membrane protein; Provisional	98.96
PRK11189	296	lipoprotein NlpI; Provisional	98.91
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.89
PRK15359	144	type III secretion system chaperone protein SscB;	98.89
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.88
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.85
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.84
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.82
KOG2076	895	consensus RNA polymerase III transcription factor	98.81
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.8
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.79
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.77
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.77
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.77
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.77
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.74
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.74
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.72
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.72
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.72
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.71
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.71
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.7
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.69
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.69
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.68
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.66
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.66
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.65
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.64
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.63
KOG1126	638	consensus DNA-binding cell division cycle control	98.61
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.6
KOG2003	840	consensus TPR repeat-containing protein [General f	98.59
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.59
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.58
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.57
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.56
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.56
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.55
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.5
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.5
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.49
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.49
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.46
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.46
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.45
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.45
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.45
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.44
KOG2003	840	consensus TPR repeat-containing protein [General f	98.43
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.42
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.4
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.38
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.37
PLN02789	320	farnesyltranstransferase	98.36
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.34
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.33
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.33
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.31
KOG2076	895	consensus RNA polymerase III transcription factor	98.28
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.26
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.26
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.25
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.24
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.24
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.21
KOG1125	579	consensus TPR repeat-containing protein [General f	98.2
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.2
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.19
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.18
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.17
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.16
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.15
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.12
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.12
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.1
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.1
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.1
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.09
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.08
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.08
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.07
KOG1125	579	consensus TPR repeat-containing protein [General f	98.03
PF12688	120	TPR_5: Tetratrico peptide repeat	98.01
KOG0553	304	consensus TPR repeat-containing protein [General f	98.0
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.0
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.0
PLN02789	320	farnesyltranstransferase	97.99
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.97
PF12688	120	TPR_5: Tetratrico peptide repeat	97.97
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.97
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.95
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.93
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.92
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.92
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.91
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.91
PRK10803	263	tol-pal system protein YbgF; Provisional	97.91
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.88
PRK15331	165	chaperone protein SicA; Provisional	97.86
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.85
PRK10803	263	tol-pal system protein YbgF; Provisional	97.81
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.79
KOG0553	304	consensus TPR repeat-containing protein [General f	97.79
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.78
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.78
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.78
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.78
PRK15331	165	chaperone protein SicA; Provisional	97.77
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.77
PF13371	73	TPR_9: Tetratricopeptide repeat	97.75
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.75
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.73
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.72
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.72
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.71
KOG3941	406	consensus Intermediate in Toll signal transduction	97.68
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.66
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.65
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.63
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.61
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.59
PF13371	73	TPR_9: Tetratricopeptide repeat	97.58
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.5
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.48
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.48
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.47
KOG4340	459	consensus Uncharacterized conserved protein [Funct	97.46
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.44
KOG3941	406	consensus Intermediate in Toll signal transduction	97.44
PF13512	142	TPR_18: Tetratricopeptide repeat	97.41
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.36
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.35
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.35
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.35
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.34
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.31
PRK04841	903	transcriptional regulator MalT; Provisional	97.3
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.28
PRK04841	903	transcriptional regulator MalT; Provisional	97.26
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.23
COG3629	280	DnrI DNA-binding transcriptional activator of the	97.22
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.21
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.18
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.08
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.07
KOG4555	175	consensus TPR repeat-containing protein [Function	96.97
PF13428	44	TPR_14: Tetratricopeptide repeat	96.94
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.91
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.9
KOG3785	557	consensus Uncharacterized conserved protein [Funct	96.87
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.83
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.82
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.79
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	96.77
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.77
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.74
PF13512	142	TPR_18: Tetratricopeptide repeat	96.72
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.7
KOG3616	1636	consensus Selective LIM binding factor [Transcript	96.7
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	96.68
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	96.67
KOG4570	418	consensus Uncharacterized conserved protein [Funct	96.61
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.6
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.57
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	96.55
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.54
KOG3616	1636	consensus Selective LIM binding factor [Transcript	96.54
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	96.54
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	96.49
PF13929	292	mRNA_stabil: mRNA stabilisation	96.45
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	96.45
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	96.39
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.38
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.36
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.33
KOG2047	835	consensus mRNA splicing factor [RNA processing and	96.26
KOG4570	418	consensus Uncharacterized conserved protein [Funct	96.19
PF13428	44	TPR_14: Tetratricopeptide repeat	96.18
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.14
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.13
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	96.1
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.08
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	96.06
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.04
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.93
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.89
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	95.88
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.85
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.79
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.69
PF13431	34	TPR_17: Tetratricopeptide repeat	95.67
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.56
PF13431	34	TPR_17: Tetratricopeptide repeat	95.54
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.52
COG1747	711	Uncharacterized N-terminal domain of the transcrip	95.45
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.45
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	95.42
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.4
KOG4555	175	consensus TPR repeat-containing protein [Function	95.39
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.38
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	95.25
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.94
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.9
PF13929	292	mRNA_stabil: mRNA stabilisation	94.83
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.72
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.71
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	94.69
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	94.66
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	94.66
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.56
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	94.42
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.41
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.03
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.03
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.02
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.86
COG3898	531	Uncharacterized membrane-bound protein [Function u	93.67
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.64
PF13762	145	MNE1: Mitochondrial splicing apparatus component	93.6
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.52
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	93.33
COG4455	273	ImpE Protein of avirulence locus involved in tempe	93.33
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.2
KOG1585	308	consensus Protein required for fusion of vesicles	93.15
PRK11906	458	transcriptional regulator; Provisional	92.93
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.75
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.74
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	92.62
PRK11906	458	transcriptional regulator; Provisional	92.61
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	92.5
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	92.43
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.4
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	92.38
COG3898	531	Uncharacterized membrane-bound protein [Function u	92.37
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.27
COG4455	273	ImpE Protein of avirulence locus involved in tempe	92.12
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	92.05
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	92.04
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.99
KOG1586	288	consensus Protein required for fusion of vesicles	91.96
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	91.78
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	91.69
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	91.67
KOG4648	536	consensus Uncharacterized conserved protein, conta	91.65
COG3947	361	Response regulator containing CheY-like receiver a	91.65
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	91.64
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	91.51
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.47
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	91.41
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	91.25
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	91.12
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	91.04
COG0457	291	NrfG FOG: TPR repeat [General function prediction	90.98
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	90.82
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	90.55
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.36
KOG4648	536	consensus Uncharacterized conserved protein, conta	90.26
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	90.26
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	89.97
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	89.58
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	89.5
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	89.18
COG3947	361	Response regulator containing CheY-like receiver a	88.91
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	88.74
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	88.17
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	88.14
COG0457	291	NrfG FOG: TPR repeat [General function prediction	88.13
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	87.97
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	87.95
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	87.91
KOG4234	271	consensus TPR repeat-containing protein [General f	87.85
PRK11639	169	zinc uptake transcriptional repressor; Provisional	87.76
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	87.66
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	87.32
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	86.43
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	86.0
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	85.96
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	85.91
PRK10564	303	maltose regulon periplasmic protein; Provisional	85.76
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	85.54
KOG2610	491	consensus Uncharacterized conserved protein [Funct	85.35
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	85.23
PF10475	291	DUF2450: Protein of unknown function N-terminal do	85.2
KOG1258	577	consensus mRNA processing protein [RNA processing	85.19
cd07153	116	Fur_like Ferric uptake regulator(Fur) and related	85.02
KOG4507	886	consensus Uncharacterized conserved protein, conta	84.97
COG3118	304	Thioredoxin domain-containing protein [Posttransla	84.73
KOG1550	552	consensus Extracellular protein SEL-1 and related	84.55
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	84.51
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	84.47
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	84.46
PF13762	145	MNE1: Mitochondrial splicing apparatus component	84.42
KOG1941	518	consensus Acetylcholine receptor-associated protei	83.8
PRK10564	303	maltose regulon periplasmic protein; Provisional	83.73
PF01475	120	FUR: Ferric uptake regulator family; InterPro: IPR	83.56
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	83.23
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	82.67
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	82.66
KOG4234	271	consensus TPR repeat-containing protein [General f	82.64
KOG4567	370	consensus GTPase-activating protein [General funct	82.46
PRK09462	148	fur ferric uptake regulator; Provisional	82.43
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	82.24
PF13934	226	ELYS: Nuclear pore complex assembly	81.8
PF10255	404	Paf67: RNA polymerase I-associated factor PAF67; I	81.8
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	81.51
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	81.48
KOG2908	380	consensus 26S proteasome regulatory complex, subun	81.08
COG5159	421	RPN6 26S proteasome regulatory complex component [	81.01
PF02847	113	MA3: MA3 domain; InterPro: IPR003891 This entry re	80.84
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	80.69
KOG3807	556	consensus Predicted membrane protein ST7 (tumor su	80.26

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.4e-35  Score=229.01  Aligned_cols=174  Identities=18%  Similarity=0.347  Sum_probs=132.7

Q ss_pred             CchhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         1 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +|++.|++++|.++|+.|.+.|++|+..+|+.+|.+|++.|++++|+++|++|.+.|+.||..+|+.++++|++.|++++
T Consensus       588 ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~ee  667 (1060)
T PLN03218        588 ACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK  667 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHH
Confidence            36677777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m~~  148 (176)
                      |.++|++|.+.|+.|+..+|+.||.+|++.|++++|.++|++|.+.|+.|+..            |++++|.++|++|.+
T Consensus       668 A~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~  747 (1060)
T PLN03218        668 AFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR  747 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777777777777777777777777777777777777777777777777655            777888888888877


Q ss_pred             CCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          149 NGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       149 ~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .|+.||..||++++.+|++.|++++|
T Consensus       748 ~Gi~Pd~~Ty~sLL~a~~k~G~le~A  773 (1060)
T PLN03218        748 LGLCPNTITYSILLVASERKDDADVG  773 (1060)
T ss_pred             cCCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            77788888888888888877777665

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.5e-35  Score=228.31  Aligned_cols=173  Identities=23%  Similarity=0.399  Sum_probs=96.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|+++|++|.+.|+.||..+|+.||.+|++.|++++|
T Consensus       482 y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA  561 (1060)
T PLN03218        482 CAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRA  561 (1060)
T ss_pred             HHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            45555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHh--cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHHH
Q 030489           82 TMMFSKMLE--KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSML  147 (176)
Q Consensus        82 ~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m~  147 (176)
                      .++|++|..  .++.||..+|+.+|.+|++.|++++|.++|++|.+.|+.|+..            |++++|.++|++|.
T Consensus       562 ~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~  641 (1060)
T PLN03218        562 FDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMK  641 (1060)
T ss_pred             HHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            555555543  3455555555555555555555555555555555555555443            55555555555555


Q ss_pred             HCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          148 RNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       148 ~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +.|+.||..||++++.+|++.|+.++|
T Consensus       642 ~~Gv~PD~~TynsLI~a~~k~G~~eeA  668 (1060)
T PLN03218        642 KKGVKPDEVFFSALVDVAGHAGDLDKA  668 (1060)
T ss_pred             HcCCCCCHHHHHHHHHHHHhCCCHHHH
Confidence            555555555555555555555554443

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

Probab=100.00  E-value=1.3e-33  Score=216.01  Aligned_cols=170  Identities=24%  Similarity=0.371  Sum_probs=129.5

Q ss_pred             CchhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         1 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +|++.|++++|+++|++|.+.|+.||..||++++.+|++.|++++|.+++..|.+.|+.||..+|++|+++|++.|++++
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            36677777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m~~  148 (176)
                      |.++|++|.    .||..+||.||.+|++.|+.++|.++|++|.+.|+.|+..            |..++|.++|+.|.+
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            777777774    3577777777777777777777777777777777777766            777777777777764


Q ss_pred             -CCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          149 -NGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       149 -~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                       .|+.|+..+|+.++.+|++.|++++|
T Consensus       455 ~~g~~p~~~~y~~li~~l~r~G~~~eA  481 (697)
T PLN03081        455 NHRIKPRAMHYACMIELLGREGLLDEA  481 (697)
T ss_pred             hcCCCCCccchHhHHHHHHhcCCHHHH
Confidence             57777777777777777777777765

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

Probab=100.00  E-value=2.6e-33  Score=214.30  Aligned_cols=170  Identities=22%  Similarity=0.381  Sum_probs=159.4

Q ss_pred             CchhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         1 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +|++.|++++|.++|+.|.    ++|..+||+++.+|++.|++++|+++|++|.+.|+.||..||++++.+|++.|++++
T Consensus       268 ~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~  343 (697)
T PLN03081        268 MYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEH  343 (697)
T ss_pred             HHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHH
Confidence            4789999999999999996    458999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC--------CChHHHHHHHHHHHHCCCC
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA--------GRPTEAMQLYDSMLRNGIM  152 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--------~~~~~a~~~~~~m~~~g~~  152 (176)
                      |.++++.|.+.|+.||..+|+.|+++|++.|++++|.++|++|.+.+......        |+.++|+++|++|.+.|+.
T Consensus       344 a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~  423 (697)
T PLN03081        344 AKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVA  423 (697)
T ss_pred             HHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999997644433322        9999999999999999999


Q ss_pred             CcHHHHHHHHHHhhcccCcccc
Q 030489          153 PDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       153 p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ||..||++++.+|++.|.+++|
T Consensus       424 Pd~~T~~~ll~a~~~~g~~~~a  445 (697)
T PLN03081        424 PNHVTFLAVLSACRYSGLSEQG  445 (697)
T ss_pred             CCHHHHHHHHHHHhcCCcHHHH
Confidence            9999999999999999998876

>PLN03077 Protein ECB2; Provisional

Probab=99.97  E-value=7.2e-31  Score=204.89  Aligned_cols=174  Identities=23%  Similarity=0.344  Sum_probs=138.5

Q ss_pred             CchhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         1 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +|++.|++++|+++|++|.+.|+.||..+|+.++.+|++.|++++|.++++.|.+.|+.|+..+|+.|+++|++.|++++
T Consensus       363 ~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~  442 (857)
T PLN03077        363 GYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDK  442 (857)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHH
Confidence            46778888888888888888888888888888888888888888888888888888887777777777777777777777


Q ss_pred             HHHHHHHHHhcC------------------------------C-------------------------------------
Q 030489           81 ATMMFSKMLEKG------------------------------P-------------------------------------   93 (176)
Q Consensus        81 a~~~~~~~~~~~------------------------------~-------------------------------------   93 (176)
                      |.++|++|.+.+                              +                                     
T Consensus       443 A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~  522 (857)
T PLN03077        443 ALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGF  522 (857)
T ss_pred             HHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCc
Confidence            777776654321                              1                                     


Q ss_pred             ----------------------------CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------
Q 030489           94 ----------------------------KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------  133 (176)
Q Consensus        94 ----------------------------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------  133 (176)
                                                  .||..+||.+|.+|++.|+.++|.++|++|.+.|+.|+..            
T Consensus       523 ~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~  602 (857)
T PLN03077        523 DGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRS  602 (857)
T ss_pred             cceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhc
Confidence                                        3456667788888888888888888888888888888876            


Q ss_pred             CChHHHHHHHHHHH-HCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          134 GRPTEAMQLYDSML-RNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ~~~~~a~~~~~~m~-~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      |.+++|+++|+.|. +.|+.|+..+|+.++.+|++.|++++|
T Consensus       603 g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA  644 (857)
T PLN03077        603 GMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEA  644 (857)
T ss_pred             ChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHH
Confidence            88888888888888 678888888888888888888888776

>PLN03077 Protein ECB2; Provisional

Probab=99.97  E-value=6.4e-31  Score=205.16  Aligned_cols=170  Identities=18%  Similarity=0.287  Sum_probs=132.8

Q ss_pred             CchhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         1 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+.+.+.+++..|.+.|+.||..+|++|+.+|++.|++++
T Consensus       262 ~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~  341 (857)
T PLN03077        262 GYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGE  341 (857)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHH
Confidence            35677777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m~~  148 (176)
                      |.++|++|.    .||..+||.+|.+|++.|++++|+++|++|.+.|+.|+..            |+.++|.++++.|.+
T Consensus       342 A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~  417 (857)
T PLN03077        342 AEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAER  417 (857)
T ss_pred             HHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHH
Confidence            777777774    3577778888888888888888888888887777777766            778888888888888


Q ss_pred             CCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          149 NGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       149 ~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .|+.|+..+|++|+.+|++.|++++|
T Consensus       418 ~g~~~~~~~~n~Li~~y~k~g~~~~A  443 (857)
T PLN03077        418 KGLISYVVVANALIEMYSKCKCIDKA  443 (857)
T ss_pred             hCCCcchHHHHHHHHHHHHcCCHHHH
Confidence            88888888888888888888877765

>PF13041 PPR_2: PPR repeat family

Probab=99.68  E-value=1.8e-16  Score=81.02  Aligned_cols=49  Identities=45%  Similarity=1.006  Sum_probs=28.8

Q ss_pred             ccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHH
Q 030489           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFC   73 (176)
Q Consensus        25 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~   73 (176)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+++|++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555555555555555555555555555555555555555555555554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.68  E-value=8.6e-15  Score=105.86  Aligned_cols=120  Identities=22%  Similarity=0.215  Sum_probs=54.0

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcCh----hhHHHHHHHHHhcCCH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS----ITFTILIDAFCKEGRM   78 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~   78 (176)
                      .+.|++++|+++|+++.+.. +++..+++.++..+.+.|++++|++.++.+.+.+..++.    ..+..+...+.+.|++
T Consensus       118 ~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  196 (389)
T PRK11788        118 LKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDL  196 (389)
T ss_pred             HHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCH
Confidence            34455555555555554432 224445555555555555555555555555443221111    1222333344444555


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      ++|...|+++.+.... +...+..+...|.+.|++++|.++++++.
T Consensus       197 ~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~  241 (389)
T PRK11788        197 DAARALLKKALAADPQ-CVRASILLGDLALAQGDYAAAIEALERVE  241 (389)
T ss_pred             HHHHHHHHHHHhHCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            5555555544443211 33344444444444445555544444444

>PF13041 PPR_2: PPR repeat family

Probab=99.67  E-value=3.6e-16  Score=79.93  Aligned_cols=50  Identities=36%  Similarity=0.788  Sum_probs=48.7

Q ss_pred             cChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 030489           60 PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK  109 (176)
Q Consensus        60 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  109 (176)
                      ||..+||++|++|++.|++++|.++|++|.+.|+.||..||+.+|.+|++
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            89999999999999999999999999999999999999999999999975

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.66  E-value=2.5e-14  Score=103.50  Aligned_cols=121  Identities=17%  Similarity=0.212  Sum_probs=68.0

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC---hhhHHHHHHHHHhcCCHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN---SITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~~~~~~   80 (176)
                      ..|++++|...|.++.+.+ +.+..++..+...+...|++++|+.+++.+...+..++   ..++..+...|.+.|++++
T Consensus        47 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~  125 (389)
T PRK11788         47 LNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDR  125 (389)
T ss_pred             hcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHH
Confidence            3456666666666666553 22445566666666666666666666666555322111   1344555556666666666


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      |..+|+++.+.. +.+..+++.++..+.+.|++++|.+.++.+...
T Consensus       126 A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  170 (389)
T PRK11788        126 AEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKL  170 (389)
T ss_pred             HHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHh
Confidence            666666665542 234555666666666666666666666655543

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

Probab=99.58  E-value=5.1e-13  Score=105.17  Aligned_cols=163  Identities=18%  Similarity=0.218  Sum_probs=102.6

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      +.|++++|.+.|+.+.+.+  |+..++..+..++.+.|++++|.+.++.+.+.. +.+..++..+...|.+.|+.++|.+
T Consensus       715 ~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~  791 (899)
T TIGR02917       715 RQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIK  791 (899)
T ss_pred             HCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHH
Confidence            4455555555555555442  222444455555555555555555555555432 2345555556666666666666666


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCC
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNG  150 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g  150 (176)
                      +|+++.+..+ .+..+++.+...+.+.|+ .+|+..+++....  .|+..             |++++|.++++++.+.+
T Consensus       792 ~~~~~~~~~p-~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  867 (899)
T TIGR02917       792 HYRTVVKKAP-DNAVVLNNLAWLYLELKD-PRALEYAEKALKL--APNIPAILDTLGWLLVEKGEADRALPLLRKAVNIA  867 (899)
T ss_pred             HHHHHHHhCC-CCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            6666665543 356666666666666666 5566666666543  22222             99999999999999765


Q ss_pred             CCCcHHHHHHHHHHhhcccCcccc
Q 030489          151 IMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       151 ~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .. +..++..+..++.+.|+.++|
T Consensus       868 ~~-~~~~~~~l~~~~~~~g~~~~A  890 (899)
T TIGR02917       868 PE-AAAIRYHLALALLATGRKAEA  890 (899)
T ss_pred             CC-ChHHHHHHHHHHHHcCCHHHH
Confidence            43 788999999999999998876

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=99.57  E-value=6.2e-13  Score=104.68  Aligned_cols=167  Identities=19%  Similarity=0.226  Sum_probs=92.9

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      .+.|++++|.++++.+.+.. +.+..+|..+..++...|++++|+..|+.+.+.. +.+...+..+..++.+.|++++|.
T Consensus       578 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  655 (899)
T TIGR02917       578 LGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAI  655 (899)
T ss_pred             HHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHH
Confidence            34556666666666655442 3355566666666666666666666666665443 224445555566666666666666


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHCCC
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRNGI  151 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~g~  151 (176)
                      .+|+++.+.... +..++..+...+...|++++|..+++.+..........           |++++|.+.|+++...  
T Consensus       656 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--  732 (899)
T TIGR02917       656 TSLKRALELKPD-NTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--  732 (899)
T ss_pred             HHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--
Confidence            666666554322 45555666666666666666666666555433211111           6666666666666544  


Q ss_pred             CCcHHHHHHHHHHhhcccCcccc
Q 030489          152 MPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       152 ~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .|+..++..+..++.+.|+.++|
T Consensus       733 ~~~~~~~~~l~~~~~~~g~~~~A  755 (899)
T TIGR02917       733 APSSQNAIKLHRALLASGNTAEA  755 (899)
T ss_pred             CCCchHHHHHHHHHHHCCCHHHH
Confidence            34445555555555555555544

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.48  E-value=2.4e-11  Score=81.43  Aligned_cols=170  Identities=12%  Similarity=0.107  Sum_probs=135.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.+++..+.. +.+...+..+...+...|++++|++.+++..+... .+...+..+...+...|++++|
T Consensus        41 ~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~~~~g~~~~A  118 (234)
T TIGR02521        41 YLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGTFLCQQGKYEQA  118 (234)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcccHHHH
Confidence            457899999999999998764 44678888999999999999999999999887643 3566778888999999999999


Q ss_pred             HHHHHHHHhcCC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHC
Q 030489           82 TMMFSKMLEKGP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus        82 ~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~  149 (176)
                      .+.+++..+... ......+..+...+...|++++|...+++...........           |++++|.+.+++..+.
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  198 (234)
T TIGR02521       119 MQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDARAYLERYQQT  198 (234)
T ss_pred             HHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999986532 2245567778889999999999999999987653221111           9999999999999866


Q ss_pred             CCCCcHHHHHHHHHHhhcccCcccc
Q 030489          150 GIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       150 g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                       ...+...+..+...+...|+.+.|
T Consensus       199 -~~~~~~~~~~~~~~~~~~~~~~~a  222 (234)
T TIGR02521       199 -YNQTAESLWLGIRIARALGDVAAA  222 (234)
T ss_pred             -CCCCHHHHHHHHHHHHHHhhHHHH
Confidence             344556667777888787877654

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.

>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=99.46  E-value=3.3e-11  Score=92.15  Aligned_cols=167  Identities=16%  Similarity=0.105  Sum_probs=116.8

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      ...|++++|...|+...+.. +.+..+|..+...+...|++++|+..|++..... +.+...+..+..++.+.|++++|.
T Consensus       376 ~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~  453 (615)
T TIGR00990       376 LELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSM  453 (615)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHH
Confidence            45677777777777776653 3356777777777777777777777777776653 224556666677777888888888


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC------------------CCChHHHHHHHH
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI------------------AGRPTEAMQLYD  144 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~------------------~~~~~~a~~~~~  144 (176)
                      ..|++..+..+ .+...|+.+...+...|++++|...|++..........                  .+++++|.++++
T Consensus       454 ~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~  532 (615)
T TIGR00990       454 ATFRRCKKNFP-EAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCE  532 (615)
T ss_pred             HHHHHHHHhCC-CChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            88887776543 36777888888888888888888888877654322111                  177888888888


Q ss_pred             HHHHCCCCCcH-HHHHHHHHHhhcccCcccc
Q 030489          145 SMLRNGIMPDG-LLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       145 ~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~A  174 (176)
                      +....  .|+. ..+..+...+.+.|+.++|
T Consensus       533 kAl~l--~p~~~~a~~~la~~~~~~g~~~eA  561 (615)
T TIGR00990       533 KALII--DPECDIAVATMAQLLLQQGDVDEA  561 (615)
T ss_pred             HHHhc--CCCcHHHHHHHHHHHHHccCHHHH
Confidence            87754  3443 4677788888888888776

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

Probab=99.44  E-value=4.9e-12  Score=87.79  Aligned_cols=168  Identities=23%  Similarity=0.256  Sum_probs=100.5

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-CCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-QLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      ...+++++|.+++....+.  .++...+...+..+.+.++++++.++++..... ..+.+...|..+...+.+.|+.++|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A  165 (280)
T PF13429_consen   88 LQDGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKA  165 (280)
T ss_dssp             --------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHH
T ss_pred             ccccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            4678899999998877665  356777888999999999999999999997754 2355778888888999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCCC----------CChHHHHHHHHHHHHCC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN-ISPNIA----------GRPTEAMQLYDSMLRNG  150 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~-~~~~~~----------~~~~~a~~~~~~m~~~g  150 (176)
                      .+.+++..+..+. |....+.++..+...|+.+++.++++...... ..|...          |+.++|+.+|++.... 
T Consensus       166 ~~~~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~-  243 (280)
T PF13429_consen  166 LRDYRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKL-  243 (280)
T ss_dssp             HHHHHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccc-
Confidence            9999999998654 78889999999999999999999998876653 112111          9999999999999864 


Q ss_pred             CCC-cHHHHHHHHHHhhcccCccccC
Q 030489          151 IMP-DGLLLSTLADYNLQSSGSQEHC  175 (176)
Q Consensus       151 ~~p-~~~~~~~l~~~~~~~g~~~~A~  175 (176)
                       .| |+.+...+..++...|+.++|.
T Consensus       244 -~p~d~~~~~~~a~~l~~~g~~~~A~  268 (280)
T PF13429_consen  244 -NPDDPLWLLAYADALEQAGRKDEAL  268 (280)
T ss_dssp             -STT-HHHHHHHHHHHT---------
T ss_pred             -ccccccccccccccccccccccccc
Confidence             44 6777789999999999999874

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.43  E-value=1.2e-11  Score=87.39  Aligned_cols=118  Identities=19%  Similarity=0.296  Sum_probs=94.8

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH-
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD-   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~-   80 (176)
                      +|+--+.+.|.+++++-.....+.+..+||.+|.+-.-..    ..+++.+|.+....||..|||+++++..+.|+++. 
T Consensus       217 l~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~a  292 (625)
T KOG4422|consen  217 LCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDA  292 (625)
T ss_pred             HHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHH
Confidence            4555677889999998887767889999999888765333    27788899999999999999999999999997654 


Q ss_pred             ---HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH-HHHHHHHH
Q 030489           81 ---ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKS-AFDVYEEM  123 (176)
Q Consensus        81 ---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m  123 (176)
                         |.+++.+|++.|+.|...+|..+|..+.+.++..+ +..++.++
T Consensus       293 r~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI  339 (625)
T KOG4422|consen  293 RKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDI  339 (625)
T ss_pred             HHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHH
Confidence               56788899999999999999999999988888755 33444444

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.40  E-value=8.2e-11  Score=90.37  Aligned_cols=166  Identities=16%  Similarity=0.130  Sum_probs=102.1

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH--
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD--   80 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~--   80 (176)
                      .+.|++++|...++.+.+....++...+..+..++.+.|++++|+..+++..+.. +.+...+..+...+...|++++  
T Consensus       188 ~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~  266 (656)
T PRK15174        188 LNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAK  266 (656)
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhH
Confidence            3456666666666665554333333444444556666677777777776666543 2245556666667777777664  


Q ss_pred             --HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHH
Q 030489           81 --ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDS  145 (176)
Q Consensus        81 --a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~  145 (176)
                        |...|++..+..+. +..++..+...+.+.|++++|...+++.....  |+..             |++++|++.+++
T Consensus       267 ~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~--P~~~~a~~~La~~l~~~G~~~eA~~~l~~  343 (656)
T PRK15174        267 LQAAEHWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATH--PDLPYVRAMYARALRQVGQYTAASDEFVQ  343 (656)
T ss_pred             HHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence              67777777666443 66677777777777777777777777766542  3322             777888887777


Q ss_pred             HHHCCCCCcHHH-HHHHHHHhhcccCcccc
Q 030489          146 MLRNGIMPDGLL-LSTLADYNLQSSGSQEH  174 (176)
Q Consensus       146 m~~~g~~p~~~~-~~~l~~~~~~~g~~~~A  174 (176)
                      +...  .|+... +..+..++...|+.++|
T Consensus       344 al~~--~P~~~~~~~~~a~al~~~G~~deA  371 (656)
T PRK15174        344 LARE--KGVTSKWNRYAAAALLQAGKTSEA  371 (656)
T ss_pred             HHHh--CccchHHHHHHHHHHHHCCCHHHH
Confidence            7754  344333 33345566677776655

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.38  E-value=3.1e-11  Score=85.45  Aligned_cols=126  Identities=19%  Similarity=0.229  Sum_probs=110.2

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      +-+..++..+|.++++-...+.|.++|++-.....+.+..+||.+|.+-.-.    ...+++.+|+.....||..|||.+
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHHH
Confidence            5588999999999999999999999999999888889999999999875432    228899999999999999999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcc
Q 030489          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQ  172 (176)
Q Consensus       104 ~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~  172 (176)
                      +.+..+.|+++.|.+.+                   ++++.+|++-|+.|+..+|..+|..+++.++.+
T Consensus       280 L~c~akfg~F~~ar~aa-------------------lqil~EmKeiGVePsLsSyh~iik~f~re~dp~  329 (625)
T KOG4422|consen  280 LSCAAKFGKFEDARKAA-------------------LQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQ  329 (625)
T ss_pred             HHHHHHhcchHHHHHHH-------------------HHHHHHHHHhCCCcchhhHHHHHHHhcccCCch
Confidence            99999999999886655                   457788888999999999999998888888764

>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=99.38  E-value=1.5e-10  Score=88.67  Aligned_cols=163  Identities=18%  Similarity=0.174  Sum_probs=129.2

Q ss_pred             CChhHHHHHHHHHhhCC-C-CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            6 CHLDAALKLFGQLTDRG-L-EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         6 ~~~~~a~~~~~~~~~~~-~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      +++++|.+.|+...+.+ . +.....|+.+...+...|++++|+..+++..+.. +-+...|..+...+...|++++|..
T Consensus       308 ~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~  386 (615)
T TIGR00990       308 ESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEE  386 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            57889999999888764 2 3345678888888889999999999999887753 2245677788888889999999999


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCC
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNG  150 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g  150 (176)
                      .|++..+.... +..+|..+...+...|++++|...|++.....  |+..             |++++|+..|++..+. 
T Consensus       387 ~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~--P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-  462 (615)
T TIGR00990       387 DFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD--PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-  462 (615)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-
Confidence            99998877543 77888899999999999999999999887653  3332             8899999999988864 


Q ss_pred             CCCc-HHHHHHHHHHhhcccCcccc
Q 030489          151 IMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       151 ~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                       .|+ ...+..+...+...|++++|
T Consensus       463 -~P~~~~~~~~lg~~~~~~g~~~~A  486 (615)
T TIGR00990       463 -FPEAPDVYNYYGELLLDQNKFDEA  486 (615)
T ss_pred             -CCCChHHHHHHHHHHHHccCHHHH
Confidence             344 56778888888888888766

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

Probab=99.37  E-value=1.7e-10  Score=78.82  Aligned_cols=167  Identities=17%  Similarity=0.209  Sum_probs=135.8

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcCh------hhHHHHHHHHHhcC
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS------ITFTILIDAFCKEG   76 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~------~~~~~ll~~~~~~~   76 (176)
                      .-+++.++|.++|-+|.+.. +.+..+--+|.+.|.+.|..++|+.++..+..+   ||.      ....-|..=|.+.|
T Consensus        46 LLs~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aG  121 (389)
T COG2956          46 LLSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAG  121 (389)
T ss_pred             HhhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhh
Confidence            34688999999999999863 336677779999999999999999999988874   332      22234556688999


Q ss_pred             CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------------------
Q 030489           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------------------  133 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------------------  133 (176)
                      -++.|+++|..+.+.+ ..-......|+..|-...+|++|+.+-+++.+.+..+...                       
T Consensus       122 l~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~  200 (389)
T COG2956         122 LLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRAR  200 (389)
T ss_pred             hhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHH
Confidence            9999999999998764 3477888999999999999999999999887766655544                       


Q ss_pred             ---------------------------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          134 ---------------------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ---------------------------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                                                 |+++.|.+.++.+.+.+..--+.+...|..+|.+.|+.++.
T Consensus       201 ~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~  268 (389)
T COG2956         201 ELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEG  268 (389)
T ss_pred             HHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHH
Confidence                                       89999999999999886666677888999999999987653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.37  E-value=1.6e-10  Score=88.88  Aligned_cols=166  Identities=15%  Similarity=0.099  Sum_probs=120.1

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      ...|++++|.+.++++.+.. |.+...+..+...+...|++++|+..+++..+.. +.+...+..+...+...|++++|.
T Consensus        87 l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~  164 (656)
T PRK15174         87 LASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAI  164 (656)
T ss_pred             hhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHH
Confidence            45788888888888888764 3367778888888888888888888888887653 235667777888888888888888


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHHHHCC
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSMLRNG  150 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m~~~g  150 (176)
                      ..++.+...... +...+..+ ..+...|++++|...++.+......+...            |++++|...+++..+..
T Consensus       165 ~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~  242 (656)
T PRK15174        165 SLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG  242 (656)
T ss_pred             HHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            888887766544 33344333 34777888888888888876653222211            88889999998888653


Q ss_pred             CCCcHHHHHHHHHHhhcccCccc
Q 030489          151 IMPDGLLLSTLADYNLQSSGSQE  173 (176)
Q Consensus       151 ~~p~~~~~~~l~~~~~~~g~~~~  173 (176)
                       ..+...+..+...+...|+.++
T Consensus       243 -p~~~~~~~~Lg~~l~~~G~~~e  264 (656)
T PRK15174        243 -LDGAALRRSLGLAYYQSGRSRE  264 (656)
T ss_pred             -CCCHHHHHHHHHHHHHcCCchh
Confidence             2235566778888888888875

>PRK12370 invasion protein regulator; Provisional

Probab=99.31  E-value=5.9e-10  Score=84.26  Aligned_cols=158  Identities=11%  Similarity=0.030  Sum_probs=85.4

Q ss_pred             CChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHH
Q 030489            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMF   85 (176)
Q Consensus         6 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~   85 (176)
                      +++++|...+++..+.. +-+...+..+...+...|++++|+..|++..+.+ +.+...+..+..++...|++++|...+
T Consensus       318 ~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~  395 (553)
T PRK12370        318 NAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTI  395 (553)
T ss_pred             hHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            34566666666666553 2255566666666666666666666666666553 223445555666666666666666666


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCCC
Q 030489           86 SKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGIM  152 (176)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~~  152 (176)
                      ++..+.++. +...+..++..+...|++++|...+++...... |+..             |+.++|.+.+.++...  .
T Consensus       396 ~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~-p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~  471 (553)
T PRK12370        396 NECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQHL-QDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--E  471 (553)
T ss_pred             HHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhcc-ccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--c
Confidence            666665433 222233333344556666666666666544321 1111             6666666666665433  3


Q ss_pred             CcHHHH-HHHHHHhhccc
Q 030489          153 PDGLLL-STLADYNLQSS  169 (176)
Q Consensus       153 p~~~~~-~~l~~~~~~~g  169 (176)
                      |+..+. +.+...+...|
T Consensus       472 ~~~~~~~~~l~~~~~~~g  489 (553)
T PRK12370        472 ITGLIAVNLLYAEYCQNS  489 (553)
T ss_pred             chhHHHHHHHHHHHhccH
Confidence            333332 33334444444

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

Probab=99.30  E-value=5.6e-10  Score=82.55  Aligned_cols=166  Identities=22%  Similarity=0.251  Sum_probs=138.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |..+|.++.|.+.|++..+.. +.-...|+.|..++-..|+..+|.+.|+........ .....+.|..+|...|.++.|
T Consensus       296 YyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-hadam~NLgni~~E~~~~e~A  373 (966)
T KOG4626|consen  296 YYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HADAMNNLGNIYREQGKIEEA  373 (966)
T ss_pred             EeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhccchHH
Confidence            567899999999999998873 325789999999999999999999999998876322 456788899999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~  148 (176)
                      ..+|....+..+. -...++.|...|-+.|++++|+..+++...  +.|+..             |+.+.|++.+.+.+.
T Consensus       374 ~~ly~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~  450 (966)
T KOG4626|consen  374 TRLYLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQ  450 (966)
T ss_pred             HHHHHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHh
Confidence            9999988876433 567799999999999999999999998765  344443             999999999998886


Q ss_pred             CCCCCcH-HHHHHHHHHhhcccCcccc
Q 030489          149 NGIMPDG-LLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       149 ~g~~p~~-~~~~~l~~~~~~~g~~~~A  174 (176)
                      .  .|+. ..++.|...|-.+|++.+|
T Consensus       451 ~--nPt~AeAhsNLasi~kDsGni~~A  475 (966)
T KOG4626|consen  451 I--NPTFAEAHSNLASIYKDSGNIPEA  475 (966)
T ss_pred             c--CcHHHHHHhhHHHHhhccCCcHHH
Confidence            4  6664 4778888999999988776

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

Probab=99.30  E-value=6.1e-11  Score=87.42  Aligned_cols=169  Identities=17%  Similarity=0.197  Sum_probs=137.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.-+++.+.|++.|++..+.. +....+|+.+..=+.....+|+|...|+........ +-..|..|.-.|.+.++++.|
T Consensus       431 fSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-hYnAwYGlG~vy~Kqek~e~A  508 (638)
T KOG1126|consen  431 FSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-HYNAWYGLGTVYLKQEKLEFA  508 (638)
T ss_pred             hhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-hhHHHHhhhhheeccchhhHH
Confidence            556788899999999988763 227788888888888889999999999887654222 445566677889999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHCC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRNG  150 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~g  150 (176)
                      +-.|+...+.++. +.....++...+-+.|+.++|++++++....+......           ++.++|+..++++++. 
T Consensus       509 e~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~-  586 (638)
T KOG1126|consen  509 EFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGRYVEALQELEELKEL-  586 (638)
T ss_pred             HHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcchHHHHHHHHHHHHh-
Confidence            9999999998765 88888899999999999999999999987654433322           9999999999999975 


Q ss_pred             CCCc-HHHHHHHHHHhhcccCccccC
Q 030489          151 IMPD-GLLLSTLADYNLQSSGSQEHC  175 (176)
Q Consensus       151 ~~p~-~~~~~~l~~~~~~~g~~~~A~  175 (176)
                       .|+ ...|..+...|-+.|+.+.|.
T Consensus       587 -vP~es~v~~llgki~k~~~~~~~Al  611 (638)
T KOG1126|consen  587 -VPQESSVFALLGKIYKRLGNTDLAL  611 (638)
T ss_pred             -CcchHHHHHHHHHHHHHHccchHHH
Confidence             566 557788889999999988774

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.28  E-value=6e-10  Score=81.03  Aligned_cols=39  Identities=26%  Similarity=0.224  Sum_probs=34.1

Q ss_pred             CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          134 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +++++|.+.|+...+.  .|+..++..+...+.+.|+.++|
T Consensus       342 ~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A  380 (398)
T PRK10747        342 GEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEA  380 (398)
T ss_pred             CCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHH
Confidence            8899999999999875  78999988999999999988776

>PRK12370 invasion protein regulator; Provisional

Probab=99.27  E-value=2e-09  Score=81.41  Aligned_cols=162  Identities=13%  Similarity=-0.011  Sum_probs=116.1

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +...|++++|...|++..+.+ +.+...+..+..++...|++++|+..+++..+.... +...+..++..+...|++++|
T Consensus       348 ~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA  425 (553)
T PRK12370        348 NTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDA  425 (553)
T ss_pred             HHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHH
Confidence            356799999999999999875 336778889999999999999999999999886433 233344445567778999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---------CChHHHHHHHHHHHH-CCC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA---------GRPTEAMQLYDSMLR-NGI  151 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------~~~~~a~~~~~~m~~-~g~  151 (176)
                      ...+++..+...+-+...+..+..++...|++++|...++++..........         +.-+.|...++.+.+ ..-
T Consensus       426 ~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~a~~~l~~ll~~~~~  505 (553)
T PRK12370        426 IRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNSERALPTIREFLESEQR  505 (553)
T ss_pred             HHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccHHHHHHHHHHHHHHhhH
Confidence            9999998876433355667888889999999999999999875542211111         444678887777763 223


Q ss_pred             CCcHHHHHHHHHHh
Q 030489          152 MPDGLLLSTLADYN  165 (176)
Q Consensus       152 ~p~~~~~~~l~~~~  165 (176)
                      .|.......++.++
T Consensus       506 ~~~~~~~~~~~~~~  519 (553)
T PRK12370        506 IDNNPGLLPLVLVA  519 (553)
T ss_pred             hhcCchHHHHHHHH
Confidence            34333344444433

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

Probab=99.25  E-value=3e-09  Score=69.68  Aligned_cols=170  Identities=14%  Similarity=0.044  Sum_probs=141.5

Q ss_pred             CchhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         1 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +|.+.|++..|.+-+++..+.. +.+..+|..+...|.+.|..+.|.+.|++..+.... +..+.|..--.+|..|++++
T Consensus        44 ~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC~qg~~~e  121 (250)
T COG3063          44 GYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLCAQGRPEE  121 (250)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHHhCCChHH
Confidence            3678999999999999999985 447899999999999999999999999998876433 66778888888899999999


Q ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKG-PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        81 a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~  148 (176)
                      |.+.|++....- ..--..+|..+.-+..+.|+++.|...|++..+.....+..           |++-.|..+++....
T Consensus       122 A~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~  201 (250)
T COG3063         122 AMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYLERYQQ  201 (250)
T ss_pred             HHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHHHHHHh
Confidence            999999988642 22245688889889999999999999999988765443333           999999999999987


Q ss_pred             CCCCCcHHHHHHHHHHhhcccCccc
Q 030489          149 NGIMPDGLLLSTLADYNLQSSGSQE  173 (176)
Q Consensus       149 ~g~~p~~~~~~~l~~~~~~~g~~~~  173 (176)
                      .+. ++..+....|..-...|+.+.
T Consensus       202 ~~~-~~A~sL~L~iriak~~gd~~~  225 (250)
T COG3063         202 RGG-AQAESLLLGIRIAKRLGDRAA  225 (250)
T ss_pred             ccc-ccHHHHHHHHHHHHHhccHHH
Confidence            765 888888888888777777553

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.25  E-value=4.5e-09  Score=70.35  Aligned_cols=143  Identities=17%  Similarity=0.134  Sum_probs=115.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-CcChhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-KPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +...|++++|.+.+++..+.. +.+...+..+...+...|++++|++.+++...... ......+..+..++...|++++
T Consensus        75 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  153 (234)
T TIGR02521        75 YQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDK  153 (234)
T ss_pred             HHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHH
Confidence            456899999999999998875 34677888999999999999999999999886532 2244567778888999999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSML  147 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~  147 (176)
                      |...+++..+.... +...+..+...+...|++++|...+++....  .|+..             |+.++|..+.+.+.
T Consensus       154 A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       154 AEKYLTRALQIDPQ-RPESLLELAELYYLRGQYKDARAYLERYQQT--YNQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            99999999887543 6778889999999999999999999998775  23222             67777777666655


Q ss_pred             H
Q 030489          148 R  148 (176)
Q Consensus       148 ~  148 (176)
                      .
T Consensus       231 ~  231 (234)
T TIGR02521       231 K  231 (234)
T ss_pred             h
Confidence            3

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.

>PF12854 PPR_1: PPR repeat

Probab=99.22  E-value=2e-11  Score=56.64  Aligned_cols=29  Identities=41%  Similarity=0.960  Sum_probs=11.3

Q ss_pred             CcChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 030489           59 KPNSITFTILIDAFCKEGRMDDATMMFSK   87 (176)
Q Consensus        59 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~   87 (176)
                      .||..||++||++|++.|++++|.++|++
T Consensus         4 ~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~   32 (34)
T PF12854_consen    4 EPDVVTYNTLIDGYCKAGRVDEAFELFDE   32 (34)
T ss_pred             CCcHhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            33333333333333333333333333333

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.21  E-value=4.3e-09  Score=83.72  Aligned_cols=163  Identities=12%  Similarity=0.082  Sum_probs=124.3

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      .+.|++++|...|+++...  +|+...+..+..++.+.|++++|...+++..+.. +.+...+..+.......|++++|.
T Consensus       520 ~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl  596 (987)
T PRK09782        520 YQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELAL  596 (987)
T ss_pred             HHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHH
Confidence            4678999999999887655  4455556677788888999999999998888764 223333333444455669999999


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHC
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~  149 (176)
                      ..+++..+..  |+...|..+..++.+.|++++|...+++.....  |+..             |+.++|+..+++..+.
T Consensus       597 ~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~--Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l  672 (987)
T PRK09782        597 NDLTRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALELE--PNNSNYQAALGYALWDSGDIAQSREMLERAHKG  672 (987)
T ss_pred             HHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999988765  467788888999999999999999999887653  4433             8999999999998865


Q ss_pred             CCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          150 GIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       150 g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                        .|+ ...+..+..++...|+.++|
T Consensus       673 --~P~~~~a~~nLA~al~~lGd~~eA  696 (987)
T PRK09782        673 --LPDDPALIRQLAYVNQRLDDMAAT  696 (987)
T ss_pred             --CCCCHHHHHHHHHHHHHCCCHHHH
Confidence              444 55677888888888888766

>TIGR00540 hemY_coli hemY protein

Probab=99.20  E-value=3e-09  Score=77.73  Aligned_cols=171  Identities=13%  Similarity=0.054  Sum_probs=93.3

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHH---HhcCCHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAF---CKEGRMD   79 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~---~~~~~~~   79 (176)
                      .+.|+++.|.+.++.+.+.. |-+..++..+...+...|++++|.+.+..+.+.++.+.......-..++   ...+..+
T Consensus       164 l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~  242 (409)
T TIGR00540       164 LAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMAD  242 (409)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            34688888888888888775 3366777788888888888888888888777665432211111001111   1111111


Q ss_pred             HHHHHHHHHHhcCCC---CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC----C-------------------
Q 030489           80 DATMMFSKMLEKGPK---ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI----A-------------------  133 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~-------------------  133 (176)
                      ++.+.+..+.+..+.   .+...+..+...+...|++++|.+++++..+.......    .                   
T Consensus       243 ~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~  322 (409)
T TIGR00540       243 EGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLI  322 (409)
T ss_pred             cCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHH
Confidence            122222222222110   14445555555555555555555555555443222221    0                   


Q ss_pred             --------------------------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          134 --------------------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 --------------------------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                                                |++++|.+.|+........|+...+..+...+.+.|+.++|
T Consensus       323 e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A  389 (409)
T TIGR00540       323 EKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEA  389 (409)
T ss_pred             HHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHH
Confidence                                      77777777777543333467777777777777777776554

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

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

Probab=99.20  E-value=2.1e-11  Score=84.67  Aligned_cols=165  Identities=21%  Similarity=0.256  Sum_probs=31.8

Q ss_pred             chhhCChhHHHHHHHHHhhCC-CCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRG-LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +.+.|++++|+++++...... .+.+...|..+.......++++.|++.|+++...+.. ++..+..++.. ...+++++
T Consensus        18 ~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~~~   95 (280)
T PF13429_consen   18 LYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDPEE   95 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccccccc
Confidence            446677777777775544333 2334555555666666677777777777777665433 44445555554 45666666


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSML  147 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~  147 (176)
                      |.++++...+..  ++...+..++..+.+.++++++.++++.+....-.+...             |+.++|++++++..
T Consensus        96 A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al  173 (280)
T PF13429_consen   96 ALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKAL  173 (280)
T ss_dssp             ------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             cccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            666665544332  344555555666666666666666666654322212111             66666666666665


Q ss_pred             HCCCCCc-HHHHHHHHHHhhcccCcc
Q 030489          148 RNGIMPD-GLLLSTLADYNLQSSGSQ  172 (176)
Q Consensus       148 ~~g~~p~-~~~~~~l~~~~~~~g~~~  172 (176)
                      +.  .|+ ......++..+...|+.+
T Consensus       174 ~~--~P~~~~~~~~l~~~li~~~~~~  197 (280)
T PF13429_consen  174 EL--DPDDPDARNALAWLLIDMGDYD  197 (280)
T ss_dssp             HH---TT-HHHHHHHHHHHCTTCHHH
T ss_pred             Hc--CCCCHHHHHHHHHHHHHCCChH
Confidence            43  343 334455555555555543

>PF12854 PPR_1: PPR repeat

Probab=99.19  E-value=4.3e-11  Score=55.53  Aligned_cols=34  Identities=56%  Similarity=1.117  Sum_probs=32.2

Q ss_pred             CCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 030489           21 RGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLT   54 (176)
Q Consensus        21 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~   54 (176)
                      +|+.||..+|++||++|++.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4789999999999999999999999999999984

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.17  E-value=9.7e-09  Score=83.82  Aligned_cols=167  Identities=15%  Similarity=0.164  Sum_probs=108.1

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-------------------------
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-------------------------   58 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-------------------------   58 (176)
                      ..|++++|++.|++..+..+ -+...+..+...|.+.|++++|+..+++..+...                         
T Consensus       473 ~~g~~~eA~~~~~~Al~~~P-~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~  551 (1157)
T PRK11447        473 NQGKWAQAAELQRQRLALDP-GSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAH  551 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            45777777777777766542 2556666677777777777777777766654321                         


Q ss_pred             ------------------------------------------------CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 030489           59 ------------------------------------------------KPNSITFTILIDAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        59 ------------------------------------------------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   90 (176)
                                                                      +.+...+..+...+.+.|++++|+..|++..+
T Consensus       552 l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~  631 (1157)
T PRK11447        552 LNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT  631 (1157)
T ss_pred             HHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                                                            11222333445556677788888888887777


Q ss_pred             cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCC--CC--
Q 030489           91 KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGI--MP--  153 (176)
Q Consensus        91 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~--~p--  153 (176)
                      ..+. +...+..+...|...|++++|++.++.....  .|+..             |+.++|.++++++....-  .|  
T Consensus       632 ~~P~-~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~  708 (1157)
T PRK11447        632 REPG-NADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSM  708 (1157)
T ss_pred             hCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcch
Confidence            6544 6778888888888888888888888876543  22222             888888888888875421  11  


Q ss_pred             -cHHHHHHHHHHhhcccCcccc
Q 030489          154 -DGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       154 -~~~~~~~l~~~~~~~g~~~~A  174 (176)
                       +...+..+...+...|+.++|
T Consensus       709 ~~a~~~~~~a~~~~~~G~~~~A  730 (1157)
T PRK11447        709 ESALVLRDAARFEAQTGQPQQA  730 (1157)
T ss_pred             hhHHHHHHHHHHHHHcCCHHHH
Confidence             123455556667777776665

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

Probab=99.15  E-value=7.5e-09  Score=74.10  Aligned_cols=170  Identities=16%  Similarity=0.129  Sum_probs=139.1

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      +-.++.++|...|++..+.++. ....|+.+.+-|....+...|++-|+.....+. -|-..|..|-.+|.-.+.+.-|.
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            4467889999999999988633 788999999999999999999999999988753 48899999999999999999999


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHH---
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLR---  148 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~---  148 (176)
                      -.|++.....+ .|...|..|.++|.+.++.++|++.|......|-.....           ++.++|-+.|.+-++   
T Consensus       419 yYfqkA~~~kP-nDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~  497 (559)
T KOG1155|consen  419 YYFQKALELKP-NDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSE  497 (559)
T ss_pred             HHHHHHHhcCC-CchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            99999998854 499999999999999999999999999988765553333           888888888876653   


Q ss_pred             -CCC-CCc-HHHHHHHHHHhhcccCccccC
Q 030489          149 -NGI-MPD-GLLLSTLADYNLQSSGSQEHC  175 (176)
Q Consensus       149 -~g~-~p~-~~~~~~l~~~~~~~g~~~~A~  175 (176)
                       .|. .|. .....-|...+.+.+++++|.
T Consensus       498 ~eg~~~~~t~ka~~fLA~~f~k~~~~~~As  527 (559)
T KOG1155|consen  498 LEGEIDDETIKARLFLAEYFKKMKDFDEAS  527 (559)
T ss_pred             hhcccchHHHHHHHHHHHHHHhhcchHHHH
Confidence             343 231 223334567778888888774

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.15  E-value=1.1e-08  Score=83.56  Aligned_cols=123  Identities=15%  Similarity=0.100  Sum_probs=87.1

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc-ChhhHH------------HH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP-NSITFT------------IL   68 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~------------~l   68 (176)
                      +.+.|++++|+..|++..+.. +.+...+..+..++.+.|++++|+..|++..+..... ....+.            ..
T Consensus       279 ~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~  357 (1157)
T PRK11447        279 AVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQ  357 (1157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHH
Confidence            345788888999888888764 3377888888888888899999998888877653221 111111            12


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        69 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      ...+.+.|++++|...|++..+.... +...+..+...+...|++++|++.|++..+.
T Consensus       358 g~~~~~~g~~~eA~~~~~~Al~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~  414 (1157)
T PRK11447        358 GDAALKANNLAQAERLYQQARQVDNT-DSYAVLGLGDVAMARKDYAAAERYYQQALRM  414 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            33566778888888888888776543 6667777778888888888888888776643

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

Probab=99.15  E-value=2.1e-08  Score=66.00  Aligned_cols=122  Identities=14%  Similarity=0.184  Sum_probs=101.5

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHH-HhcCC--HHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAF-CKEGR--MDDA   81 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~-~~~~~--~~~a   81 (176)
                      .++.+++...++...+.+ +.+...|..+...|...|++++|+..|++..+.... +...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHH
Confidence            456677777887777665 558999999999999999999999999998887533 677777777764 67777  5999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS  129 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  129 (176)
                      .+++++..+.+.. +..++..+...+.+.|++++|...|+++.+...+
T Consensus       130 ~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~  176 (198)
T PRK10370        130 REMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDLNSP  176 (198)
T ss_pred             HHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            9999999998766 8889999999999999999999999999875433

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.12  E-value=1.4e-08  Score=79.70  Aligned_cols=167  Identities=15%  Similarity=0.097  Sum_probs=110.0

Q ss_pred             hhhCChhHHHHHHHHHhhCCCC-ccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc---ChhhHHHHHHHHHhcCCH
Q 030489            3 IKECHLDAALKLFGQLTDRGLE-PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP---NSITFTILIDAFCKEGRM   78 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~---~~~~~~~ll~~~~~~~~~   78 (176)
                      ...|++++|+..|+.+.+.+.+ |+ ..-..+..+|...|++++|+.+|+++.+.....   .......+..++...|++
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            4567888888888888776532 22 222224667888888888888888876542111   123455566677888888


Q ss_pred             HHHHHHHHHHHhcCC-----------CCc---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------
Q 030489           79 DDATMMFSKMLEKGP-----------KAN---VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------  133 (176)
Q Consensus        79 ~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------  133 (176)
                      ++|.++++.+....+           .|+   ...+..+...+...|++++|+++++++...  .|+..           
T Consensus       327 ~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~--~P~n~~l~~~lA~l~~  404 (765)
T PRK10049        327 PGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN--APGNQGLRIDYASVLQ  404 (765)
T ss_pred             HHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            888888888876532           112   234556677778888888888888887654  33333           


Q ss_pred             --CChHHHHHHHHHHHHCCCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          134 --GRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 --~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                        |++++|++.+++....  .|+ ...+......+.+.|++++|
T Consensus       405 ~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A  446 (765)
T PRK10049        405 ARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQM  446 (765)
T ss_pred             hcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHH
Confidence              8888888888887764  455 34445555666777776654

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.11  E-value=6.1e-08  Score=67.90  Aligned_cols=167  Identities=14%  Similarity=0.022  Sum_probs=100.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.+.|++++|...|++..+.. +.+...|+.+...+...|++++|+..|+...+.... +..++..+..++...|++++|
T Consensus        74 ~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA  151 (296)
T PRK11189         74 YDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELA  151 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHH
Confidence            345677778888887777764 336777777778888888888888888777765322 455666677777777888888


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---------CChHHHHHHHHHHHHC---
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA---------GRPTEAMQLYDSMLRN---  149 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------~~~~~a~~~~~~m~~~---  149 (176)
                      .+.|+...+..+. +. ........+...+++++|...+++..... .++..         |+.+.+ +.+..+.+.   
T Consensus       152 ~~~~~~al~~~P~-~~-~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~~~~~~~~~~~lg~~~~~-~~~~~~~~~~~~  227 (296)
T PRK11189        152 QDDLLAFYQDDPN-DP-YRALWLYLAESKLDPKQAKENLKQRYEKL-DKEQWGWNIVEFYLGKISEE-TLMERLKAGATD  227 (296)
T ss_pred             HHHHHHHHHhCCC-CH-HHHHHHHHHHccCCHHHHHHHHHHHHhhC-CccccHHHHHHHHccCCCHH-HHHHHHHhcCCC
Confidence            8888777765433 22 11222223345567788877776544322 12111         444433 244444321   


Q ss_pred             CC--CC-cHHHHHHHHHHhhcccCcccc
Q 030489          150 GI--MP-DGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       150 g~--~p-~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ..  .| ....|..+...+.+.|+.++|
T Consensus       228 ~~~l~~~~~ea~~~Lg~~~~~~g~~~~A  255 (296)
T PRK11189        228 NTELAERLCETYFYLAKYYLSLGDLDEA  255 (296)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            01  11 124677777788888887766

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.10  E-value=2e-08  Score=80.04  Aligned_cols=141  Identities=12%  Similarity=0.094  Sum_probs=91.8

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      .+.|++++|...+++..+.. +.+...+..+.......|++++|+..+++..+.  .|+...+..+..++.+.|++++|.
T Consensus       553 l~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~  629 (987)
T PRK09782        553 QAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAV  629 (987)
T ss_pred             HHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            45677777777777776654 223333333444444557777777777776654  345666777777777777777777


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHC
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~  149 (176)
                      ..|++.....+. +...++.+..++...|++++|+..+++..+.  .|+..             |++++|...+++..+.
T Consensus       630 ~~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l  706 (987)
T PRK09782        630 SDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDD  706 (987)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            777777776544 6666777777777777777777777776653  23332             7777777777777643

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

Probab=99.09  E-value=4.7e-08  Score=67.23  Aligned_cols=165  Identities=19%  Similarity=0.219  Sum_probs=121.8

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcCh-------------------
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS-------------------   62 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-------------------   62 (176)
                      |...|-+|.|+.+|..+.+.+ ..-......|+..|-...+|++|+++-.++.+.+-.+..                   
T Consensus       117 ym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~  195 (389)
T COG2956         117 YMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSD  195 (389)
T ss_pred             HHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhh
Confidence            456788899999998888765 346677888888899999999999888877765433211                   


Q ss_pred             -------------------hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           63 -------------------ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        63 -------------------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                                         ..--.+-+.....|++++|.+.++...+.+...-..+...|..+|...|+.++...++..+
T Consensus       196 ~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~  275 (389)
T COG2956         196 VDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRA  275 (389)
T ss_pred             HHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence                               1111233556678888888888888888887777788888999999999999999999888


Q ss_pred             HHCCCCCCCC----------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhccc
Q 030489          124 CENNISPNIA----------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSS  169 (176)
Q Consensus       124 ~~~~~~~~~~----------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  169 (176)
                      .+....+...          ...+.|..++.+-...  .|+...+..++..-...+
T Consensus       276 ~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~da  329 (389)
T COG2956         276 METNTGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADA  329 (389)
T ss_pred             HHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccc
Confidence            7765444443          5556666666665554  799999998887765443

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

Probab=99.08  E-value=6.2e-09  Score=71.72  Aligned_cols=168  Identities=12%  Similarity=0.074  Sum_probs=79.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh-------
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK-------   74 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-------   74 (176)
                      |.+.|-+.+|.+.|+...+.  .|-+.||-.|-++|.+...+..|+.++.+-... ++-|+.....+...+-.       
T Consensus       233 ylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~~~~~a  309 (478)
T KOG1129|consen  233 YLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAMEQQEDA  309 (478)
T ss_pred             HHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHHhHHHH
Confidence            44555556666666555554  445555555666666666666555555543332 11122222222233333       


Q ss_pred             ---------------------------cCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 030489           75 ---------------------------EGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus        75 ---------------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  127 (176)
                                                 .++++-|..+++.+.+.|+. +...|+.+--+|.-.++++-++..|++....-
T Consensus       310 ~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlsta  388 (478)
T KOG1129|consen  310 LQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALSTA  388 (478)
T ss_pred             HHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhhc
Confidence                                       33334444444444444433 44444444444444444444444444443322


Q ss_pred             CCCCCC--------------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          128 ISPNIA--------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       128 ~~~~~~--------------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      -.|+..              |++..|.++|+-....+ .-....++.|.-.-.+.|+++.|
T Consensus       389 t~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~A  448 (478)
T KOG1129|consen  389 TQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGA  448 (478)
T ss_pred             cCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHH
Confidence            222221              66666666666665432 22345566666666666666554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.07  E-value=5.9e-08  Score=76.21  Aligned_cols=159  Identities=11%  Similarity=-0.012  Sum_probs=125.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCc---cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-----------CcC---hhh
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEP---DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-----------KPN---SIT   64 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-----------~~~---~~~   64 (176)
                      |...|++++|+..|+++.+.....   .......+..++.+.|++++|+++++.+.....           .|+   ...
T Consensus       282 yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a  361 (765)
T PRK10049        282 YLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQG  361 (765)
T ss_pred             HHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHH
Confidence            567899999999999987653221   135566777788999999999999999886531           123   224


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------
Q 030489           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------  133 (176)
Q Consensus        65 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------  133 (176)
                      +..+...+...|+.++|+++++++....+. +...+..+...+...|++++|++.+++.....  |+..           
T Consensus       362 ~~~~a~~l~~~g~~~eA~~~l~~al~~~P~-n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~--Pd~~~l~~~~a~~al  438 (765)
T PRK10049        362 QSLLSQVAKYSNDLPQAEMRARELAYNAPG-NQGLRIDYASVLQARGWPRAAENELKKAEVLE--PRNINLEVEQAWTAL  438 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC--CCChHHHHHHHHHHH
Confidence            556778889999999999999999987544 78899999999999999999999999987753  5553           


Q ss_pred             --CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHh
Q 030489          134 --GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN  165 (176)
Q Consensus       134 --~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~  165 (176)
                        +++++|..+++++.+.  .|+......+-...
T Consensus       439 ~~~~~~~A~~~~~~ll~~--~Pd~~~~~~~~~~~  470 (765)
T PRK10049        439 DLQEWRQMDVLTDDVVAR--EPQDPGVQRLARAR  470 (765)
T ss_pred             HhCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence              9999999999999975  67766555554444

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

Probab=99.06  E-value=1.2e-08  Score=78.07  Aligned_cols=159  Identities=16%  Similarity=0.254  Sum_probs=123.1

Q ss_pred             HHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCC------------------------CCcChhhHHHH
Q 030489           13 KLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ------------------------LKPNSITFTIL   68 (176)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~------------------------~~~~~~~~~~l   68 (176)
                      .+|..+...|+.|+..||.+++.-|+..|+.+.|- +|..|+-..                        -.|...||+.|
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            46677888899999999999999999999998887 776665321                        13677889999


Q ss_pred             HHHHHhcCCHHH---HHHHHHHHHh----cC-------------------------------------------------
Q 030489           69 IDAFCKEGRMDD---ATMMFSKMLE----KG-------------------------------------------------   92 (176)
Q Consensus        69 l~~~~~~~~~~~---a~~~~~~~~~----~~-------------------------------------------------   92 (176)
                      ..+|...|++..   +.+.++.+..    .|                                                 
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            999999887543   3222222111    00                                                 


Q ss_pred             ------------------------------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---------
Q 030489           93 ------------------------------PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA---------  133 (176)
Q Consensus        93 ------------------------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------  133 (176)
                                                    -.|++.+|..++++-...|+.+.|..++.+|.+.|.+....         
T Consensus       170 ~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g~  249 (1088)
T KOG4318|consen  170 WNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLGI  249 (1088)
T ss_pred             ccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhcC
Confidence                                          04788899999999999999999999999999999887776         


Q ss_pred             CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcc
Q 030489          134 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQ  172 (176)
Q Consensus       134 ~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~  172 (176)
                      +...-+..+++-|.+.|+.|++.|+...+-.+...|...
T Consensus       250 ~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~  288 (1088)
T KOG4318|consen  250 NAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTK  288 (1088)
T ss_pred             ccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhh
Confidence            777778888899999999999999998888877755543

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

Probab=99.06  E-value=4.2e-08  Score=67.74  Aligned_cols=145  Identities=14%  Similarity=0.093  Sum_probs=119.4

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      |...=+.+.++|.+.|.+.+|.+.++.-.+.  .|-+.||-.|-+.|.+.++++.|..++.+-.+. ++.++....-+..
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~AR  298 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQAR  298 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHH
Confidence            3344468999999999999999999987776  567889999999999999999999999998876 4446666667788


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          106 GYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .+-..++.+++.++++...+........           ++++.|+.+++++.+.|+. ++..|..+--+|...+.++.+
T Consensus       299 i~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~  377 (478)
T KOG1129|consen  299 IHEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLV  377 (478)
T ss_pred             HHHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhh
Confidence            8999999999999999987642211111           9999999999999999975 788898888888888777654

>TIGR00540 hemY_coli hemY protein

Probab=99.04  E-value=6.5e-08  Score=70.80  Aligned_cols=167  Identities=15%  Similarity=0.111  Sum_probs=119.7

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChh--hHHHHHHHHHhcCCHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI--TFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~ll~~~~~~~~~~~a   81 (176)
                      ..|+++.|.+.+....+.... +...+-....+..+.|+.+.+.+.+.+..+..  |+..  .--.....+...|+++.|
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~-~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAE-PVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHH
Confidence            579999999999887776322 23444455677888999999999999987653  4443  334457888899999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC----------CCh-----HHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA----------GRP-----TEAMQLYDSM  146 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----------~~~-----~~a~~~~~~m  146 (176)
                      ...++.+.+..+. +..++..+...|.+.|+|+++.+.+..+.+.+..+...          +..     +...+.+..+
T Consensus       173 l~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       173 RHGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            9999999988755 77889999999999999999999999998876543322          112     1112234334


Q ss_pred             HHCCC---CCcHHHHHHHHHHhhcccCcccc
Q 030489          147 LRNGI---MPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       147 ~~~g~---~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .+...   +.+...+..+...+...|+.++|
T Consensus       252 ~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A  282 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALAEHLIDCDDHDSA  282 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHHHHHHHCCChHHH
Confidence            33211   12667777787888888877665

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=99.03  E-value=5.7e-08  Score=70.80  Aligned_cols=121  Identities=15%  Similarity=0.142  Sum_probs=92.4

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHH--HHHHHHHhcCCHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFT--ILIDAFCKEGRMDDAT   82 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~   82 (176)
                      .|++++|++......+.... ....|-....+..+.|+++.+.+.+.++.+.  .|+.....  .....+...|++++|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~-p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQ-PVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccc-hHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            58999999888776654212 1222333345557999999999999998875  45554333  3356788999999999


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS  129 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  129 (176)
                      +.++.+.+..+. +......+...|.+.|+|+++.+++..+.+.+..
T Consensus       174 ~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~  219 (398)
T PRK10747        174 HGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVG  219 (398)
T ss_pred             HHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCC
Confidence            999999988755 7888999999999999999999999998876554

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.02  E-value=9.2e-08  Score=74.99  Aligned_cols=166  Identities=15%  Similarity=0.108  Sum_probs=125.0

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      ..+.|+++.|++.|++..+..+.-....+ .++..+...|+.++|+.++++.... -+.+......+...+...|++++|
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~A  121 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQA  121 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHH
Confidence            35889999999999999887433112344 8888888999999999999998721 111222223335578888999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC----------CChHHHHHHHHHHHHCCC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA----------GRPTEAMQLYDSMLRNGI  151 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----------~~~~~a~~~~~~m~~~g~  151 (176)
                      .++|+++.+..+. +...+..++..|...++.++|++.++++..........          ++..+|++.++++.+.  
T Consensus       122 iely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~--  198 (822)
T PRK14574        122 LALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRL--  198 (822)
T ss_pred             HHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh--
Confidence            9999999998765 67888888999999999999999999987654331111          5565699999999976  


Q ss_pred             CCc-HHHHHHHHHHhhcccCcc
Q 030489          152 MPD-GLLLSTLADYNLQSSGSQ  172 (176)
Q Consensus       152 ~p~-~~~~~~l~~~~~~~g~~~  172 (176)
                      .|+ ...+..+..++.+.|-..
T Consensus       199 ~P~n~e~~~~~~~~l~~~~~~~  220 (822)
T PRK14574        199 APTSEEVLKNHLEILQRNRIVE  220 (822)
T ss_pred             CCCCHHHHHHHHHHHHHcCCcH
Confidence            454 556677778877777554

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

Probab=99.00  E-value=1e-08  Score=76.10  Aligned_cols=117  Identities=16%  Similarity=0.222  Sum_probs=58.4

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc-ChhhHHHHHHHHHhcCCHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP-NSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      .+|+...|+.-|++..+.. +--...|-.|...|...+.+++|+..|.+....  .| ....+..|...|...|.++-|+
T Consensus       230 ~~Gei~~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI  306 (966)
T KOG4626|consen  230 AQGEIWLAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAI  306 (966)
T ss_pred             hcchHHHHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CCcchhhccceEEEEeccccHHHHH
Confidence            3455666666666655542 113455556666666666666666666554443  22 2333444444455555555555


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      ..|++..+..+. -...|+.|..++-..|++.+|...+.+..
T Consensus       307 ~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL  347 (966)
T KOG4626|consen  307 DTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKAL  347 (966)
T ss_pred             HHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHH
Confidence            555554444322 33445555555555555555555554443

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

Probab=98.99  E-value=2.6e-07  Score=65.11  Aligned_cols=125  Identities=10%  Similarity=0.112  Sum_probs=72.7

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      .|+|.+|+++..+-.+.+.. ....|..-..+--+.|+.+.+-.++.+..+.--.++....-+........|+.+.|..-
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            57777777777776666533 44555566666667777777777777666542233444444444555555555555555


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 030489           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN  131 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  131 (176)
                      ..++.+.+.. ++........+|.+.|+|.....+...|.+.+.-.+
T Consensus       176 v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~  221 (400)
T COG3071         176 VDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSD  221 (400)
T ss_pred             HHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCCh
Confidence            5555555433 455555555555555555555555555555544333

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.97  E-value=1.5e-07  Score=58.92  Aligned_cols=110  Identities=12%  Similarity=-0.026  Sum_probs=92.1

Q ss_pred             HHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 030489           11 ALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        11 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   90 (176)
                      -..+|++..+.  .|+  .+..+...+...|++++|...|+...... +.+...+..+..++.+.|++++|...|+....
T Consensus        12 ~~~~~~~al~~--~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         12 PEDILKQLLSV--DPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHHHHc--CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            34566666655  333  35667888899999999999999988775 33788888999999999999999999999998


Q ss_pred             cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           91 KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        91 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .++. +..++..+..++...|++++|...|+.....
T Consensus        87 l~p~-~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         87 LDAS-HPEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            8654 8899999999999999999999999988764

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.96  E-value=1.4e-07  Score=73.97  Aligned_cols=169  Identities=12%  Similarity=0.132  Sum_probs=122.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCC-----CCcChhhHHHHHHHHHhcC
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-----LKPNSITFTILIDAFCKEG   76 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-----~~~~~~~~~~ll~~~~~~~   76 (176)
                      +.+.|++.++++.|+.+...+.+....+-..+.++|...+.+++|+.+|+.+....     ..++......|.-++...+
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            45678888999999999888876677788888999999999999999998886643     1223444567888888899


Q ss_pred             CHHHHHHHHHHHHhcCC-------------CCcH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---------
Q 030489           77 RMDDATMMFSKMLEKGP-------------KANV-VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA---------  133 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~~~-------------~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------  133 (176)
                      ++++|..+++.+.+..+             .||- ..+..++..+...|++.+|.+.++.+...  .|...         
T Consensus       382 ~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~--aP~n~~l~~~~A~v  459 (822)
T PRK14574        382 QLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST--APANQNLRIALASI  459 (822)
T ss_pred             cHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            99999999988886322             1121 22344567778889999999999988654  33333         


Q ss_pred             ----CChHHHHHHHHHHHHCCCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          134 ----GRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ----~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                          |.+.+|.+.++.....  .|+ ..+......++...|++++|
T Consensus       460 ~~~Rg~p~~A~~~~k~a~~l--~P~~~~~~~~~~~~al~l~e~~~A  503 (822)
T PRK14574        460 YLARDLPRKAEQELKAVESL--APRSLILERAQAETAMALQEWHQM  503 (822)
T ss_pred             HHhcCCHHHHHHHHHHHhhh--CCccHHHHHHHHHHHHhhhhHHHH
Confidence                8888888888666543  444 44556777777777777765

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.91  E-value=6.4e-07  Score=62.83  Aligned_cols=142  Identities=15%  Similarity=0.062  Sum_probs=114.5

Q ss_pred             hCChhHHHHHHHHHhhCC-CCc--cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            5 ECHLDAALKLFGQLTDRG-LEP--DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      .++.+.++.-+.++.... ..|  ....|..+...+...|++++|...|++..+... .+...|+.+...+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHH
Confidence            356677888888888643 222  246688888899999999999999999888753 3678899999999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC----------CCChHHHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI----------AGRPTEAMQLYDSMLR  148 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~----------~~~~~~a~~~~~~m~~  148 (176)
                      ...|+...+..+. +..+|..+..++...|++++|.+.|+.....+.....          .++.++|...|.+...
T Consensus       118 ~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~  193 (296)
T PRK11189        118 YEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPYRALWLYLAESKLDPKQAKENLKQRYE  193 (296)
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            9999999987655 6788888999999999999999999998775433221          1789999999977653

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

Probab=98.89  E-value=2.8e-07  Score=56.94  Aligned_cols=111  Identities=15%  Similarity=0.123  Sum_probs=91.3

Q ss_pred             HHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 030489           14 LFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGP   93 (176)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~   93 (176)
                      .++...... +.+......+...+...|++++|...++.....+ +.+...+..+..++.+.|++++|...+++..+.+.
T Consensus         5 ~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p   82 (135)
T TIGR02552         5 TLKDLLGLD-SEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDP   82 (135)
T ss_pred             hHHHHHcCC-hhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            455555553 2255667788888999999999999999988765 34778888899999999999999999999888764


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 030489           94 KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus        94 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  127 (176)
                       .+..++..+...|...|++++|...|+...+..
T Consensus        83 -~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        83 -DDPRPYFHAAECLLALGEPESALKALDLAIEIC  115 (135)
T ss_pred             -CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence             478888889999999999999999999887643

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

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.89  E-value=1.3e-07  Score=59.24  Aligned_cols=103  Identities=9%  Similarity=-0.036  Sum_probs=86.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|+...... +.+...|..+..++...|++++|+..|+...... +.+...+..+..++...|++++|
T Consensus        34 ~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~~~eA  111 (144)
T PRK15359         34 SWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGEPGLA  111 (144)
T ss_pred             HHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHH
Confidence            457899999999999998875 4488999999999999999999999999999865 34788899999999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (176)
                      ...|+...+..+. +...|...-.+.
T Consensus       112 i~~~~~Al~~~p~-~~~~~~~~~~~~  136 (144)
T PRK15359        112 REAFQTAIKMSYA-DASWSEIRQNAQ  136 (144)
T ss_pred             HHHHHHHHHhCCC-ChHHHHHHHHHH
Confidence            9999999987543 555665444443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.88  E-value=9.9e-07  Score=59.73  Aligned_cols=146  Identities=14%  Similarity=0.153  Sum_probs=89.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCC-c-cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcCh--hhHHHHHHHHHhc--
Q 030489            2 LIKECHLDAALKLFGQLTDRGLE-P-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS--ITFTILIDAFCKE--   75 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~~--   75 (176)
                      +.+.|++++|...|+++....+. | ...++..+..++.+.|++++|+..++++.+.......  .++..+..++...  
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            45678888888888888765321 1 1246677888888888888888888888765322111  1344444555543  


Q ss_pred             ------CCHHHHHHHHHHHHhcCCCCcHHHHH-----------------HHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC
Q 030489           76 ------GRMDDATMMFSKMLEKGPKANVVTYS-----------------CLIDGYFKSQNMKSAFDVYEEMCENNIS-PN  131 (176)
Q Consensus        76 ------~~~~~a~~~~~~~~~~~~~~~~~~~~-----------------~l~~~~~~~g~~~~a~~~~~~m~~~~~~-~~  131 (176)
                            |+.++|.+.|+.+.+..+. +...+.                 .+...|.+.|++.+|...++...+.... |.
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                  6788888888888876443 322221                 2334556667777777777766543221 11


Q ss_pred             CC-------------CChHHHHHHHHHHHH
Q 030489          132 IA-------------GRPTEAMQLYDSMLR  148 (176)
Q Consensus       132 ~~-------------~~~~~a~~~~~~m~~  148 (176)
                      ..             |+.++|..+++.+..
T Consensus       202 ~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       202 TEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            11             666666666655553

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).

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.85  E-value=7.2e-09  Score=48.36  Aligned_cols=33  Identities=39%  Similarity=0.798  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC
Q 030489           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN   61 (176)
Q Consensus        29 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~   61 (176)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            567777777777777777777777777777765

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.

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

Probab=98.84  E-value=2e-06  Score=62.27  Aligned_cols=152  Identities=20%  Similarity=0.179  Sum_probs=122.1

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC-hhhHHHHHHHHHhcCCHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN-SITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a   81 (176)
                      .+.|+++.|+..+..+...- |-|+..+......+.+.|+.++|.+.++.+...  .|+ ....-.+..++.+.|++.+|
T Consensus       317 ~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~ea  393 (484)
T COG4783         317 YLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEA  393 (484)
T ss_pred             HHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHH
Confidence            46789999999999988773 447777788899999999999999999999876  455 55566677999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHHHHHHCC--CCCcHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNG--IMPDGLLLS  159 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~~m~~~g--~~p~~~~~~  159 (176)
                      +.++......... |...|..|..+|...|+..++..-..+....      .|.++.|+..+....+..  -.|+-.=+.
T Consensus       394 i~~L~~~~~~~p~-dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~------~G~~~~A~~~l~~A~~~~~~~~~~~aR~d  466 (484)
T COG4783         394 IRILNRYLFNDPE-DPNGWDLLAQAYAELGNRAEALLARAEGYAL------AGRLEQAIIFLMRASQQVKLGFPDWARAD  466 (484)
T ss_pred             HHHHHHHhhcCCC-CchHHHHHHHHHHHhCchHHHHHHHHHHHHh------CCCHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            9999999988655 9999999999999999999999888876542      278899999888887542  233333344


Q ss_pred             HHHHH
Q 030489          160 TLADY  164 (176)
Q Consensus       160 ~l~~~  164 (176)
                      ..|..
T Consensus       467 ari~~  471 (484)
T COG4783         467 ARIDQ  471 (484)
T ss_pred             HHHHH
Confidence            44443

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

Probab=98.82  E-value=2.5e-07  Score=66.97  Aligned_cols=168  Identities=18%  Similarity=0.188  Sum_probs=115.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |...++.++....|.....-+ +-|+.+|..-...+.-.+++++|+.=|+....... -+...|--+.-+..+.+.++++
T Consensus       370 y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~p-e~~~~~iQl~~a~Yr~~k~~~~  447 (606)
T KOG0547|consen  370 YADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDP-ENAYAYIQLCCALYRQHKIAES  447 (606)
T ss_pred             HhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcCh-hhhHHHHHHHHHHHHHHHHHHH
Confidence            445555666666666665554 22556666666666666666666666666555421 1344455555566778889999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC---------CCCC---------CChHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS---------PNIA---------GRPTEAMQLY  143 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~---------~~~~---------~~~~~a~~~~  143 (176)
                      +..|++.++. ++-.+..|+.....+...+++++|.+.|+........         |-..         +++.+|.+++
T Consensus       448 m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll  526 (606)
T KOG0547|consen  448 MKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQWKEDINQAENLL  526 (606)
T ss_pred             HHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhchhhhHHHHHHHH
Confidence            9999998877 6668889999999999999999999999987653222         1111         8888888888


Q ss_pred             HHHHHCCCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          144 DSMLRNGIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       144 ~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ++..+.  .|. ...|..|...-.+.|++++|
T Consensus       527 ~KA~e~--Dpkce~A~~tlaq~~lQ~~~i~eA  556 (606)
T KOG0547|consen  527 RKAIEL--DPKCEQAYETLAQFELQRGKIDEA  556 (606)
T ss_pred             HHHHcc--CchHHHHHHHHHHHHHHHhhHHHH
Confidence            888864  343 44777888888888877766

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

Probab=98.81  E-value=9.1e-07  Score=68.13  Aligned_cols=166  Identities=16%  Similarity=0.181  Sum_probs=129.4

Q ss_pred             CChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHH
Q 030489            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMF   85 (176)
Q Consensus         6 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~   85 (176)
                      |++++|.+++.+..+.. +.+...|.+|...|-+.|+.+++...+-.....+ +.|...|..+-....+.|++++|.-.|
T Consensus       153 g~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~cy  230 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYCY  230 (895)
T ss_pred             CCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            99999999999999885 5588999999999999999999998886655443 447789999999999999999999999


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC----------------CChHHHHHHHHHHHH-
Q 030489           86 SKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA----------------GRPTEAMQLYDSMLR-  148 (176)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----------------~~~~~a~~~~~~m~~-  148 (176)
                      .+.++..++ +...+-.-+..|-+.|+...|...|.++.....+.+..                ++-+.|++.++.... 
T Consensus       231 ~rAI~~~p~-n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~  309 (895)
T KOG2076|consen  231 SRAIQANPS-NWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSK  309 (895)
T ss_pred             HHHHhcCCc-chHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            999998654 66666667789999999999999999998764422211                555888888777764 


Q ss_pred             CCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          149 NGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       149 ~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .+-..+...++.+...+.+...++.|
T Consensus       310 ~~~~~~~ed~ni~ael~l~~~q~d~~  335 (895)
T KOG2076|consen  310 EKDEASLEDLNILAELFLKNKQSDKA  335 (895)
T ss_pred             ccccccccHHHHHHHHHHHhHHHHHh
Confidence            22344555666666666655544433

>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=98.80  E-value=3.7e-07  Score=65.84  Aligned_cols=115  Identities=17%  Similarity=0.228  Sum_probs=97.4

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      ..++++.|.++|+++.+..  |+  ....+...+...++..+|++++++..+.. +-+..........+.+.++++.|.+
T Consensus       181 ~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~lAL~  255 (395)
T PF09295_consen  181 LTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYELALE  255 (395)
T ss_pred             hcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHH
Confidence            4578999999999999874  44  44458888888899999999999988653 3366677777788999999999999


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      +.++..+..+. +..+|..|..+|.+.|+++.|+..++.+.
T Consensus       256 iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  256 IAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999998644 77899999999999999999999998764

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.79  E-value=1.5e-08  Score=46.96  Aligned_cols=33  Identities=30%  Similarity=0.502  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP   60 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~   60 (176)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            456666666666666666666666666666655

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

Probab=98.77  E-value=3e-06  Score=55.91  Aligned_cols=154  Identities=19%  Similarity=0.104  Sum_probs=125.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-CCCcChhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-QLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      |-+.|+.+.|.+-|+...+.. +-+..+.|.....+|..|++++|.+.|++.... .+..-..||..+.-+..+.|+.+.
T Consensus        79 Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~  157 (250)
T COG3063          79 YQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQ  157 (250)
T ss_pred             HHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchh
Confidence            557899999999999999875 337899999999999999999999999998875 223345688888889999999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m~~  148 (176)
                      |.+.|++-.+.... ...+.-.+.....+.|++..|...++.....+. ++..            |+.+.+.++-.++.+
T Consensus       158 A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         158 AEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            99999999988655 666788889999999999999999999877665 4433            887777777777765


Q ss_pred             CCCCCcHHHHHH
Q 030489          149 NGIMPDGLLLST  160 (176)
Q Consensus       149 ~g~~p~~~~~~~  160 (176)
                      .  .|.+.-|-.
T Consensus       236 ~--fP~s~e~q~  245 (250)
T COG3063         236 L--FPYSEEYQT  245 (250)
T ss_pred             h--CCCcHHHHh
Confidence            4  565554443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.77  E-value=2.2e-08  Score=46.62  Aligned_cols=33  Identities=39%  Similarity=0.765  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 030489           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN  131 (176)
Q Consensus        99 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  131 (176)
                      +||.+|.+|++.|++++|.++|++|.+.|+.|+
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            455555555555555555555555555554443

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.77  E-value=6.5e-07  Score=66.40  Aligned_cols=173  Identities=18%  Similarity=0.210  Sum_probs=122.0

Q ss_pred             chhhCChhHHHHHHHHHhhC-----C--CCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-----CC-CcCh-hhHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR-----G--LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-----QL-KPNS-ITFTI   67 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~-~~~~-~~~~~   67 (176)
                      |...+++++|..+|+.+...     |  .+.-..+++.|..+|.+.|++++|...+++..+.     |. .|.+ ..++.
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            56778999999999888643     2  2334577888899999999999998888765431     11 2222 33566


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc-----CCC--CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCCCCC---
Q 030489           68 LIDAFCKEGRMDDATMMFSKMLEK-----GPK--ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN----ISPNIA---  133 (176)
Q Consensus        68 ll~~~~~~~~~~~a~~~~~~~~~~-----~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~----~~~~~~---  133 (176)
                      +...+...+++++|..+++...+.     |..  .-..+++.|...|...|++++|.+++++.....    -.....   
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            777889999999999998865431     111  134679999999999999999999999875422    111111   


Q ss_pred             ------------CChHHHHHHHHHHH----HCCC-CCc-HHHHHHHHHHhhcccCcccc
Q 030489          134 ------------GRPTEAMQLYDSML----RNGI-MPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ------------~~~~~a~~~~~~m~----~~g~-~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                                  +...+|.++|.+-.    ..|. .|+ ..+|..|...|.+.|+.+.|
T Consensus       411 ~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a  469 (508)
T KOG1840|consen  411 PLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAA  469 (508)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHH
Confidence                        66666777665543    3442 233 45889999999999998876

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.77  E-value=9.4e-07  Score=68.30  Aligned_cols=119  Identities=11%  Similarity=0.109  Sum_probs=73.3

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      +.|++++|+.+|+...+.. |-+...+..+...+.+.+++++|+..+++....... +....+.+..++.+.|++++|..
T Consensus        98 ~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~a~~l~~~g~~~~A~~  175 (694)
T PRK15179         98 AAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLEAKSWDEIGQSEQADA  175 (694)
T ss_pred             HcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHhcchHHHHH
Confidence            4566667777776666653 224555666666666677777777666666655322 34444455566666677777777


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +|+++...+.. +..++..+..++...|+.++|...|+...+
T Consensus       176 ~y~~~~~~~p~-~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        176 CFERLSRQHPE-FENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77766664332 466666666666666777777666666543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.74  E-value=2.6e-08  Score=46.18  Aligned_cols=32  Identities=28%  Similarity=0.585  Sum_probs=16.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 030489           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENNISP  130 (176)
Q Consensus        99 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  130 (176)
                      +|+.+|.+|++.|+++.|.++|++|.+.|+.|
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            45555555555555555555555555544443

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

Probab=98.74  E-value=4.7e-07  Score=70.21  Aligned_cols=146  Identities=17%  Similarity=0.223  Sum_probs=119.7

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      .++.++|+.+|.+..... |.|...=|-+.-.++..|++.+|..+|.+..+.... ...+|-.+..+|..+|++..|+++
T Consensus       625 kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~-~~dv~lNlah~~~e~~qy~~AIqm  702 (1018)
T KOG2002|consen  625 KKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSD-FEDVWLNLAHCYVEQGQYRLAIQM  702 (1018)
T ss_pred             HHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHhh-CCceeeeHHHHHHHHHHHHHHHHH
Confidence            467899999999998875 448899999999999999999999999999887542 567888999999999999999999


Q ss_pred             HHHHH-hcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------------------------
Q 030489           85 FSKML-EKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------------------------  133 (176)
Q Consensus        85 ~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------------------------  133 (176)
                      |+... .....-++.+.+.|..++.+.|.+.+|.+.........+.....                              
T Consensus       703 Ye~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~  782 (1018)
T KOG2002|consen  703 YENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAV  782 (1018)
T ss_pred             HHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            99765 44445577889999999999999999999888765543322222                              


Q ss_pred             CChHHHHHHHHHHHHCCCC
Q 030489          134 GRPTEAMQLYDSMLRNGIM  152 (176)
Q Consensus       134 ~~~~~a~~~~~~m~~~g~~  152 (176)
                      +..+.|.++|.+|...+-.
T Consensus       783 ~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  783 KELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHHHHHHHhcCCC
Confidence            7889999999999865533

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

Probab=98.72  E-value=1.5e-06  Score=58.20  Aligned_cols=141  Identities=16%  Similarity=0.095  Sum_probs=106.4

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      ..|+-+.+..+........ +.+....+.......+.|++.+|+..+++..... ++|..+|+.+--+|.+.|+.+.|..
T Consensus        78 ~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr~~~Ar~  155 (257)
T COG5010          78 LRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLGRFDEARR  155 (257)
T ss_pred             hcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHccChhHHHH
Confidence            3566666666666554332 4466677778888899999999999998887654 5688889988899999999999999


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHH
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSML  147 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~  147 (176)
                      -|.+..+..+. +....|.+.-.|.-.|+++.|..++......+......           |++.+|..+...-.
T Consensus       156 ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~~e~  229 (257)
T COG5010         156 AYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAVQEL  229 (257)
T ss_pred             HHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhccccc
Confidence            99888887544 77788888888888999999999988876654433333           88888777765544

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

Probab=98.72  E-value=7.4e-06  Score=58.84  Aligned_cols=142  Identities=16%  Similarity=0.142  Sum_probs=96.2

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHH---HHHHHHhCCChhHHHHHHHHHHhCCCCcC-hhhHHHHHHHHHhcCCH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNT---IICGYCSLNRLDEAVQLFEKLTCVQLKPN-SITFTILIDAFCKEGRM   78 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   78 (176)
                      ...|++++|.+++++..+.. |.+...+..   ........+....+.+.+..  .....|+ ......+...+...|++
T Consensus        54 ~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~  130 (355)
T cd05804          54 WIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQY  130 (355)
T ss_pred             HHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCH
Confidence            45688999999999888763 334445442   22222234455555555544  1112233 23344555678889999


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCCC--------------CChHHHHHHH
Q 030489           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS-PNIA--------------GRPTEAMQLY  143 (176)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~--------------~~~~~a~~~~  143 (176)
                      ++|.+.+++..+..+. +...+..+...|...|++++|..++++....... +...              |+.++|+.++
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            9999999999987644 6777888888999999999999999987664322 2211              9999999999


Q ss_pred             HHHHH
Q 030489          144 DSMLR  148 (176)
Q Consensus       144 ~~m~~  148 (176)
                      ++...
T Consensus       210 ~~~~~  214 (355)
T cd05804         210 DTHIA  214 (355)
T ss_pred             HHHhc
Confidence            99863

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.

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

Probab=98.72  E-value=2e-06  Score=57.62  Aligned_cols=145  Identities=12%  Similarity=0.054  Sum_probs=101.6

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +... ..+-..+...|+-+....+........ +-|....+.......+.|++..|...|.+..... ++|..+|+.+--
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-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHH
Confidence            4444 666677777777777777776644332 3355666677788888888888888888887764 458888888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          106 GYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +|.+.|+++.|..-|.+..+.....+..           |+.+.|..++......+- -+...-..+..+....|++.+|
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A  221 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREA  221 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHH
Confidence            8888888888888888776643332222           888888888888876532 2555666777777777777665

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

Probab=98.71  E-value=5.7e-07  Score=62.65  Aligned_cols=113  Identities=19%  Similarity=0.196  Sum_probs=63.5

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh----cCCH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EGRM   78 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~   78 (176)
                      ...|++++|+++++.-      .+.......+..|.+.++++.|.+.++.|.+.  ..| .+..-+..++..    .+.+
T Consensus       113 ~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD-~~l~qLa~awv~l~~g~e~~  183 (290)
T PF04733_consen  113 FHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED-SILTQLAEAWVNLATGGEKY  183 (290)
T ss_dssp             CCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC-HHHHHHHHHHHHHHHTTTCC
T ss_pred             HHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc-HHHHHHHHHHHHHHhCchhH
Confidence            3456666666665431      24555556666666777777777777776654  222 333333333322    2356


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      ..|.-+|+++.+. +.+++.+.+.+..+....|++++|.+++.+...
T Consensus       184 ~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~  229 (290)
T PF04733_consen  184 QDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALE  229 (290)
T ss_dssp             CHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            6777777776554 345666666677777777777777777666543

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.

>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=98.71  E-value=3.3e-06  Score=55.38  Aligned_cols=125  Identities=14%  Similarity=0.092  Sum_probs=95.1

Q ss_pred             CccHHHHHHHHHHHHhC-----CChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC----------------CHHHHH
Q 030489           24 EPDIITYNTIICGYCSL-----NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG----------------RMDDAT   82 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----------------~~~~a~   82 (176)
                      ..+..+|..++..|.+.     |..+-....++.|.+.|+.-|..+|+.|++.+=+..                +.+.|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            55899999999999754     678888889999999999999999999999876522                457799


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH-HHHHHHHHHHH-CCCCCCCC------CChHHHHHHHHHHHH
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK-SAFDVYEEMCE-NNISPNIA------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~-~a~~~~~~m~~-~~~~~~~~------~~~~~a~~~~~~m~~  148 (176)
                      +++++|.+.|+-||..++..+++.+++.+..- +..++.--|.+ .+..|...      +..+.|.-.+++|..
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmpkfk~~nP~plp~~lP~Dp~eLA~lal~rm~~  197 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMPKFKNINPWPLPRPLPQDPLELAKLALRRMSP  197 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHHHHhccCCCCCCcCCCCCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999887632 33333333322 23333333      556666666777754

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.70  E-value=2.9e-07  Score=66.78  Aligned_cols=105  Identities=18%  Similarity=0.212  Sum_probs=67.4

Q ss_pred             CChhHHHHHHHHHhhC--CCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            6 CHLDAALKLFGQLTDR--GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         6 ~~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      .+++.+..++.+.+..  ....-..|.+++++.|.+.|..++++.+++.=...|+-||..++|.||+.+.+.|++..|.+
T Consensus        80 ~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~  159 (429)
T PF10037_consen   80 DDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAK  159 (429)
T ss_pred             hHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHH
Confidence            3455566666666544  22223444557777777777777777777776777777777777777777777777777777


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKS  110 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~  110 (176)
                      +..+|...+.-.+..|+...+.+|.+.
T Consensus       160 V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  160 VATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            777666555555556665555555544

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 [].

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

Probab=98.69  E-value=1.5e-06  Score=62.77  Aligned_cols=59  Identities=19%  Similarity=0.416  Sum_probs=33.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           66 TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        66 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      .++.+-|.-.++.++|...|+...+.++. ....|+.+-.-|....+...|.+-++...+
T Consensus       334 CiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd  392 (559)
T KOG1155|consen  334 CIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVD  392 (559)
T ss_pred             eeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHh
Confidence            33444455555666666666666665543 555566666666666666666666655543

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.69  E-value=7.8e-07  Score=64.61  Aligned_cols=111  Identities=21%  Similarity=0.193  Sum_probs=96.1

Q ss_pred             CCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC--CCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHH
Q 030489           21 RGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV--QLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVV   98 (176)
Q Consensus        21 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   98 (176)
                      .+.+.+......+++.+....+.+.+..++.+....  ....-..|.+++++.|.+.|..+.+..++..-.+.|+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            345667888889999999999999999999988865  333445677899999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 030489           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN  131 (176)
Q Consensus        99 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  131 (176)
                      ++|.||+.+.+.|++..|.++...|...+...+
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~  172 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDN  172 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCC
Confidence            999999999999999999999999876554333

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 [].

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.68  E-value=4.8e-06  Score=56.40  Aligned_cols=149  Identities=16%  Similarity=0.159  Sum_probs=111.3

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCC-c-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcH--HHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK-P-NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANV--VTYS  101 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  101 (176)
                      ....+..+...+.+.|++++|...|++....... | ...++..+..++.+.|++++|...++++.+..+....  .++.
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            5677888888999999999999999998775321 1 1246677889999999999999999999976543222  2455


Q ss_pred             HHHHHHHhc--------CCHHHHHHHHHHHHHCCCCCCCC----------------------------CChHHHHHHHHH
Q 030489          102 CLIDGYFKS--------QNMKSAFDVYEEMCENNISPNIA----------------------------GRPTEAMQLYDS  145 (176)
Q Consensus       102 ~l~~~~~~~--------g~~~~a~~~~~~m~~~~~~~~~~----------------------------~~~~~a~~~~~~  145 (176)
                      .+..++...        |++++|.+.++.+..........                            |++++|...+++
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~  191 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFET  191 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            555556554        78999999999987653332211                            889999999999


Q ss_pred             HHHCCC-CC-cHHHHHHHHHHhhcccCcccc
Q 030489          146 MLRNGI-MP-DGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       146 m~~~g~-~p-~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ..+..- .| ....+..+..++.+.|+.++|
T Consensus       192 al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A  222 (235)
T TIGR03302       192 VVENYPDTPATEEALARLVEAYLKLGLKDLA  222 (235)
T ss_pred             HHHHCCCCcchHHHHHHHHHHHHHcCCHHHH
Confidence            986521 12 346788999999999998876

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).

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.66  E-value=1.3e-06  Score=51.17  Aligned_cols=82  Identities=15%  Similarity=0.237  Sum_probs=69.0

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCC-CcChhhHHHHHHHHHhcC--------CHHHHHHHHHHHHhcCCCCcHHH
Q 030489           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQL-KPNSITFTILIDAFCKEG--------RMDDATMMFSKMLEKGPKANVVT   99 (176)
Q Consensus        29 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~   99 (176)
                      +-..-|..+...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        .+-....+|+.|...+++|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            334566667777999999999999999999 999999999998876643        34567888999999999999999


Q ss_pred             HHHHHHHHHhc
Q 030489          100 YSCLIDGYFKS  110 (176)
Q Consensus       100 ~~~l~~~~~~~  110 (176)
                      |+.++..+.+.
T Consensus       107 Ynivl~~Llkg  117 (120)
T PF08579_consen  107 YNIVLGSLLKG  117 (120)
T ss_pred             HHHHHHHHHHh
Confidence            99999987653

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 [, , ].

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.66  E-value=8.8e-06  Score=63.11  Aligned_cols=132  Identities=11%  Similarity=0.140  Sum_probs=109.2

Q ss_pred             CCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHH
Q 030489           23 LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP-NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYS  101 (176)
Q Consensus        23 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  101 (176)
                      .+.+...+..|.....+.|++++|+.+++...+.  .| +......+..++.+.+++++|....++.....+. +.....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~  158 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREIL  158 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHH
Confidence            4557899999999999999999999999999886  44 4566777889999999999999999999998765 788888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCCCCcHHHHHH
Q 030489          102 CLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGIMPDGLLLST  160 (176)
Q Consensus       102 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~~p~~~~~~~  160 (176)
                      .+..++.+.|++++|..+|++....+  |+..             |+.++|...|++..+. ..|-...|+.
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~--p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~  227 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQH--PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTR  227 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHH
Confidence            89999999999999999999998733  3322             9999999999999843 2333344443

>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=98.65  E-value=2.1e-06  Score=48.81  Aligned_cols=96  Identities=27%  Similarity=0.363  Sum_probs=74.6

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 030489           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF  108 (176)
Q Consensus        29 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  108 (176)
                      ++..+...+...|++++|+.++++..+.. +.+...+..+..++...+++++|.+.++...+.... +..++..+...+.
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~   79 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHH
Confidence            35567777888899999999998887653 224466777788888889999999999888876543 5567888888888


Q ss_pred             hcCCHHHHHHHHHHHHHC
Q 030489          109 KSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       109 ~~g~~~~a~~~~~~m~~~  126 (176)
                      ..|+++.|...+......
T Consensus        80 ~~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          80 KLGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHHhHHHHHHHHHHHHcc
Confidence            899999998888877543

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.64  E-value=6.4e-06  Score=51.62  Aligned_cols=117  Identities=15%  Similarity=0.133  Sum_probs=83.5

Q ss_pred             hhCChhHHHHHHHHHhhCCCCc--cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcCh--hhHHHHHHHHHhcCCHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEP--DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS--ITFTILIDAFCKEGRMD   79 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~~~~~~   79 (176)
                      ..++...+...++.+.+.....  .....-.+...+...|++++|...|+........|+.  ...-.|...+...|+++
T Consensus        23 ~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            3577888888888888764332  1233344567788899999999999998887533332  23344667788899999


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 030489           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE  122 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  122 (176)
                      +|...++.....  ......+....+.|.+.|++++|...|+.
T Consensus       103 ~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  103 EALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999998774433  23455677778899999999999998875

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.63  E-value=7.3e-07  Score=52.22  Aligned_cols=72  Identities=19%  Similarity=0.435  Sum_probs=63.7

Q ss_pred             hhhCChhHHHHHHHHHhhCCC-CccHHHHHHHHHHHHhCC--------ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGL-EPDIITYNTIICGYCSLN--------RLDEAVQLFEKLTCVQLKPNSITFTILIDAFC   73 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~--------~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~   73 (176)
                      ...+++.....+|+.++..|+ .|+..+|+.++.+.++..        +.-+.+.+|+.|...+++|+..||+.++..+.
T Consensus        36 ~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~Ll  115 (120)
T PF08579_consen   36 FENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSLL  115 (120)
T ss_pred             HhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHH
Confidence            456899999999999999999 999999999999988654        24578999999999999999999999998876


Q ss_pred             h
Q 030489           74 K   74 (176)
Q Consensus        74 ~   74 (176)
                      +
T Consensus       116 k  116 (120)
T PF08579_consen  116 K  116 (120)
T ss_pred             H
Confidence            4

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 [, , ].

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

Probab=98.61  E-value=2.4e-06  Score=63.83  Aligned_cols=141  Identities=19%  Similarity=0.181  Sum_probs=95.6

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      ....+|.|...|.....-. +..-..|.-+...|.+.++++.|+-.|+...+.+.. +.+....+...+-+.|+.++|++
T Consensus       467 ~~ee~d~a~~~fr~Al~~~-~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~  544 (638)
T KOG1126|consen  467 ATEEFDKAMKSFRKALGVD-PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQ  544 (638)
T ss_pred             hhHHHHhHHHHHHhhhcCC-chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHH
Confidence            3456777777777766542 224455666777778888888888888777765433 55556666677777888888888


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHC
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~  149 (176)
                      ++++....+.. |+-.--.....+...+++++|+..++++++  +.|+..             |..+.|+.-|.-+.+.
T Consensus       545 ~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  545 LYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQELEELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             HHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence            88887776655 555555556666677788888888887765  345544             7777777777666654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.60  E-value=5e-06  Score=61.86  Aligned_cols=174  Identities=22%  Similarity=0.222  Sum_probs=121.2

Q ss_pred             CchhhCChhHHHHHHHHHhhC-----CC-CccH-HHHHHHHHHHHhCCChhHHHHHHHHHHhC-----CC--CcChhhHH
Q 030489            1 MLIKECHLDAALKLFGQLTDR-----GL-EPDI-ITYNTIICGYCSLNRLDEAVQLFEKLTCV-----QL--KPNSITFT   66 (176)
Q Consensus         1 ~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~--~~~~~~~~   66 (176)
                      +|...|+++.|+.++++..+.     |. .|.. ...+.+...|...+++++|+.+|+.+...     |-  +--..+++
T Consensus       208 ~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~  287 (508)
T KOG1840|consen  208 MYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLN  287 (508)
T ss_pred             HHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            377899999999999988765     21 2233 33445778899999999999999988742     21  11235567


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHh-----cC-CCCcHH-HHHHHHHHHHhcCCHHHHHHHHHHHHH---CCCCCCCC---
Q 030489           67 ILIDAFCKEGRMDDATMMFSKMLE-----KG-PKANVV-TYSCLIDGYFKSQNMKSAFDVYEEMCE---NNISPNIA---  133 (176)
Q Consensus        67 ~ll~~~~~~~~~~~a~~~~~~~~~-----~~-~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~---  133 (176)
                      .|..+|.+.|++++|...++...+     .+ ..|.+. .++.+...|...+++++|..++....+   .-..++..   
T Consensus       288 nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a  367 (508)
T KOG1840|consen  288 NLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLA  367 (508)
T ss_pred             HHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHH
Confidence            777889999999998888776543     11 122333 366677888899999999999987533   22222221   


Q ss_pred             -------------CChHHHHHHHHHHHHC----CC--CCc-HHHHHHHHHHhhcccCcccc
Q 030489          134 -------------GRPTEAMQLYDSMLRN----GI--MPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 -------------~~~~~a~~~~~~m~~~----g~--~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                                   |++++|.+++++..+.    +.  .+. ...++.+...|.+.++..+|
T Consensus       368 ~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a  428 (508)
T KOG1840|consen  368 KIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEA  428 (508)
T ss_pred             HHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchH
Confidence                         9999999999888732    22  222 34667888888888777655

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

Probab=98.59  E-value=3e-06  Score=61.38  Aligned_cols=163  Identities=17%  Similarity=0.142  Sum_probs=110.9

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      .|++++|.+.|++.....-.-+...|| +-..+-..|++++|++.|-.+... +.-+..+..-+.+.|-...+..+|+++
T Consensus       503 ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            688999999999888764333334444 334467889999999998776543 123666777778888888888889888


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCC
Q 030489           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGI  151 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~  151 (176)
                      +-+.... ++.|+.+...|.+.|-+.|+-..|++++-+--.  .-|...             .-+++++.+|++..-  +
T Consensus       581 ~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaal--i  655 (840)
T KOG2003|consen  581 LMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--I  655 (840)
T ss_pred             HHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--c
Confidence            8877665 556788888888888888888888776644221  122221             556777777776643  4


Q ss_pred             CCcHHHHHHHHHH-hhcccCcccc
Q 030489          152 MPDGLLLSTLADY-NLQSSGSQEH  174 (176)
Q Consensus       152 ~p~~~~~~~l~~~-~~~~g~~~~A  174 (176)
                      .|+..-|-.++.. +.++|+.+.|
T Consensus       656 qp~~~kwqlmiasc~rrsgnyqka  679 (840)
T KOG2003|consen  656 QPNQSKWQLMIASCFRRSGNYQKA  679 (840)
T ss_pred             CccHHHHHHHHHHHHHhcccHHHH
Confidence            7777777766644 3455665544

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

Probab=98.59  E-value=3.3e-06  Score=52.07  Aligned_cols=89  Identities=16%  Similarity=0.183  Sum_probs=77.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|+.+...+ +.+...|..+...+...|++++|..++++....+ +.+..++..+..++...|++++|
T Consensus        27 ~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~~A  104 (135)
T TIGR02552        27 LYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALGEPESA  104 (135)
T ss_pred             HHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCCHHHH
Confidence            457899999999999998875 4488999999999999999999999999987764 44677888888999999999999


Q ss_pred             HHHHHHHHhcC
Q 030489           82 TMMFSKMLEKG   92 (176)
Q Consensus        82 ~~~~~~~~~~~   92 (176)
                      ...|+...+..
T Consensus       105 ~~~~~~al~~~  115 (135)
T TIGR02552       105 LKALDLAIEIC  115 (135)
T ss_pred             HHHHHHHHHhc
Confidence            99999998865

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

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

Probab=98.58  E-value=8.2e-06  Score=53.85  Aligned_cols=116  Identities=14%  Similarity=0.193  Sum_probs=91.9

Q ss_pred             CCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHH-HHhcCC--HHHH
Q 030489           40 LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG-YFKSQN--MKSA  116 (176)
Q Consensus        40 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~--~~~a  116 (176)
                      .++.++++..++...+.. +.|...|..+...|...|+++.|...|++..+.... +...+..+..+ +...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHH
Confidence            566677777777766654 448889999999999999999999999999998765 88888888886 467777  5999


Q ss_pred             HHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHCCCCCcHHHH
Q 030489          117 FDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRNGIMPDGLLL  158 (176)
Q Consensus       117 ~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~g~~p~~~~~  158 (176)
                      .+++++..+.+......           |++++|...|+++.+. ..|+..-+
T Consensus       130 ~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l-~~~~~~r~  181 (198)
T PRK10370        130 REMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDL-NSPRVNRT  181 (198)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCccHH
Confidence            99999998765543333           9999999999999865 34444433

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.57  E-value=7.6e-06  Score=49.11  Aligned_cols=99  Identities=16%  Similarity=0.109  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCC--cChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--cHHHHHHH
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK--PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKA--NVVTYSCL  103 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l  103 (176)
                      .++..+...+.+.|++++|.+.|..+.+....  .....+..+..++.+.|+++.|.+.|+.+.......  ....+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            35566677777888888888888887754211  113455567777888888888888888877653221  24556777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC
Q 030489          104 IDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       104 ~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      ..++.+.|++++|...++++...
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHH
Confidence            77778888888888888877664

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=98.56  E-value=2.5e-07  Score=52.39  Aligned_cols=81  Identities=19%  Similarity=0.313  Sum_probs=44.7

Q ss_pred             hCChhHHHHHHHHHhhCCC-CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGL-EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      .|+++.|+.+++++.+... .++...+..+..++.+.|++++|+.+++. .+.+. .+......+..++.+.|++++|++
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            4666777777777665532 12344455566667777777777777766 22211 122333344566666777777766


Q ss_pred             HHHH
Q 030489           84 MFSK   87 (176)
Q Consensus        84 ~~~~   87 (176)
                      +|++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6654

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.56  E-value=1.2e-07  Score=42.86  Aligned_cols=29  Identities=41%  Similarity=0.761  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 030489           99 TYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus        99 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  127 (176)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555444

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.55  E-value=1.2e-07  Score=42.87  Aligned_cols=29  Identities=34%  Similarity=0.881  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCC
Q 030489           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQ   57 (176)
Q Consensus        29 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~   57 (176)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            44555555555555555555555555443

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.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.50  E-value=4.8e-05  Score=48.86  Aligned_cols=114  Identities=13%  Similarity=0.093  Sum_probs=83.2

Q ss_pred             hhHHHHHHHHHh-hCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc--ChhhHHHHHHHHHhcCCHHHHHHH
Q 030489            8 LDAALKLFGQLT-DRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP--NSITFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus         8 ~~~a~~~~~~~~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      +..+...+..+. ..+..-....|..+...+...|++++|+..|+........+  ...++..+...+...|++++|...
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            445555555553 33333346778888888999999999999999987653222  235788888999999999999999


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHH-------hcCCHHHHHHHHHH
Q 030489           85 FSKMLEKGPKANVVTYSCLIDGYF-------KSQNMKSAFDVYEE  122 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~-------~~g~~~~a~~~~~~  122 (176)
                      ++........ ...++..+...+.       +.|+++.|...+++
T Consensus        95 ~~~Al~~~~~-~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033         95 YFQALERNPF-LPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHhCcC-cHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            9998876433 5566777777777       67777776666543

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.50  E-value=5.6e-07  Score=50.91  Aligned_cols=81  Identities=22%  Similarity=0.340  Sum_probs=62.2

Q ss_pred             CCChhHHHHHHHHHHhCCCC-cChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 030489           40 LNRLDEAVQLFEKLTCVQLK-PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFD  118 (176)
Q Consensus        40 ~~~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  118 (176)
                      .|+++.|+.+++++.+.... ++...+..+..+|.+.|++++|..+++. .+.+.. +....-.+..+|.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHHH
Confidence            68899999999999887432 2455566689999999999999999998 433333 34455566899999999999999


Q ss_pred             HHHH
Q 030489          119 VYEE  122 (176)
Q Consensus       119 ~~~~  122 (176)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            9875

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.49  E-value=6.3e-05  Score=48.53  Aligned_cols=132  Identities=16%  Similarity=0.160  Sum_probs=96.1

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN--SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      ....+..+...+...|++++|+..|++..+....+.  ...+..+...+.+.|++++|...+++..+.... +...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHH
Confidence            456678888889999999999999999886543332  467888889999999999999999999887543 67778888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCc
Q 030489          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGS  171 (176)
Q Consensus       104 ~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  171 (176)
                      ...|...|+...+..-++....         .+++|.+++++....  .|+.  |..++..+...|+.
T Consensus       113 g~~~~~~g~~~~a~~~~~~A~~---------~~~~A~~~~~~a~~~--~p~~--~~~~~~~~~~~~~~  167 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEAEA---------LFDKAAEYWKQAIRL--APNN--YIEAQNWLKTTGRS  167 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHHHH---------HHHHHHHHHHHHHhh--Cchh--HHHHHHHHHhcCcc
Confidence            8888888876555544443332         246677777777653  3433  66666666555543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.49  E-value=1.1e-05  Score=48.47  Aligned_cols=99  Identities=11%  Similarity=0.077  Sum_probs=77.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCC--ccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCC--cChhhHHHHHHHHHhcCC
Q 030489            2 LIKECHLDAALKLFGQLTDRGLE--PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK--PNSITFTILIDAFCKEGR   77 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~~~   77 (176)
                      +.+.|++++|.+.|..+.+....  .....+..+..++.+.|++++|++.|+........  .....+..+..++.+.|+
T Consensus        12 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~   91 (119)
T TIGR02795        12 VLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGD   91 (119)
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCC
Confidence            45789999999999999876321  12467778999999999999999999998875322  124567778888999999


Q ss_pred             HHHHHHHHHHHHhcCCCCcHHHHH
Q 030489           78 MDDATMMFSKMLEKGPKANVVTYS  101 (176)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~  101 (176)
                      .++|...++++.+..+. +..+..
T Consensus        92 ~~~A~~~~~~~~~~~p~-~~~~~~  114 (119)
T TIGR02795        92 KEKAKATLQQVIKRYPG-SSAAKL  114 (119)
T ss_pred             hHHHHHHHHHHHHHCcC-ChhHHH
Confidence            99999999999988543 444443

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.46  E-value=1.5e-05  Score=49.99  Aligned_cols=98  Identities=11%  Similarity=0.071  Sum_probs=83.2

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +....-.+...+...|++++|..+|+.+...... +..-|..|-.++-..|++++|+..|......++. |..++-.+-.
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~  111 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAE  111 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHH
Confidence            3455556777788999999999999998876533 6667778888899999999999999999988865 8999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 030489          106 GYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~  125 (176)
                      ++...|+.+.|.+.|+....
T Consensus       112 c~L~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        112 CYLACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            99999999999999997765

>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=98.46  E-value=4.2e-05  Score=55.49  Aligned_cols=116  Identities=17%  Similarity=0.224  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 030489           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF  108 (176)
Q Consensus        29 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  108 (176)
                      ...+|+..+...++++.|+++++++.+..  |+  ....+...+...++-.+|.+++.+..+... .+......-...|.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p-~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENP-QDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            34455555566666666666666666552  33  333455666666666666666666665432 25555555556666


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHHHHHHCCCCCcH-HHHHHHHHHhhcccCcccc
Q 030489          109 KSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDG-LLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       109 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~A  174 (176)
                      +.++++.|+.+.+++.+.                         .|+. .+|..|..+|.+.|+++.|
T Consensus       246 ~k~~~~lAL~iAk~av~l-------------------------sP~~f~~W~~La~~Yi~~~d~e~A  287 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVEL-------------------------SPSEFETWYQLAECYIQLGDFENA  287 (395)
T ss_pred             hcCCHHHHHHHHHHHHHh-------------------------CchhHHHHHHHHHHHHhcCCHHHH
Confidence            666666666666665442                         4443 3666777777777777665

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

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

Probab=98.45  E-value=1e-05  Score=59.75  Aligned_cols=122  Identities=20%  Similarity=0.201  Sum_probs=96.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC--CCC----cChhhHHHHHHHHHhc
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV--QLK----PNSITFTILIDAFCKE   75 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~----~~~~~~~~ll~~~~~~   75 (176)
                      |.+-+.++.|.+.|.+..... |.|+...+-+.......+.+.+|..+|+.....  .+.    --..+++.|..+|.+.
T Consensus       390 y~~t~n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl  468 (611)
T KOG1173|consen  390 YMRTNNLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKL  468 (611)
T ss_pred             HHHhccHHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHH
Confidence            456778888999998887764 447888888888888888999999998776521  011    1344577888889999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           76 GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +.+++|+..+++....... +..++.++...|...|+++.|...|.+...
T Consensus       469 ~~~~eAI~~~q~aL~l~~k-~~~~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  469 NKYEEAIDYYQKALLLSPK-DASTHASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             hhHHHHHHHHHHHHHcCCC-chhHHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence            9999999999988887554 889999999999999999999999987654

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

Probab=98.45  E-value=1.8e-06  Score=60.21  Aligned_cols=129  Identities=18%  Similarity=0.217  Sum_probs=75.5

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh--
Q 030489           32 TIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK--  109 (176)
Q Consensus        32 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  109 (176)
                      .....+...|++++|+++++.-      .+.......+..|.+.++++.|.+.++.|.+.+-  | .+...+..++..  
T Consensus       107 ~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~e--D-~~l~qLa~awv~l~  177 (290)
T PF04733_consen  107 LAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQIDE--D-SILTQLAEAWVNLA  177 (290)
T ss_dssp             HHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSC--C-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC--c-HHHHHHHHHHHHHH
Confidence            3334455677888887777532      3556666677778888888888888888876532  2 233334443332  


Q ss_pred             --cCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCc
Q 030489          110 --SQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGS  171 (176)
Q Consensus       110 --~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  171 (176)
                        .+.+.+|..+|+++.+. ..++..            |++++|.+++.+..+.+ .-++.+...++-+....|+.
T Consensus       178 ~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~  251 (290)
T PF04733_consen  178 TGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKP  251 (290)
T ss_dssp             HTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-T
T ss_pred             hCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCC
Confidence              23578888888887553 222222            88888888877766432 22344556666666666654

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.

>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=98.45  E-value=5.9e-06  Score=46.84  Aligned_cols=89  Identities=22%  Similarity=0.319  Sum_probs=74.1

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|...++...+.. +.+...+..+...+...+++++|.+.++...... +.+..++..+...+...|+++.|
T Consensus        10 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a   87 (100)
T cd00189          10 YYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKYEEA   87 (100)
T ss_pred             HHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhHHHH
Confidence            456899999999999998764 3355788889999999999999999999987764 33556788888999999999999


Q ss_pred             HHHHHHHHhcC
Q 030489           82 TMMFSKMLEKG   92 (176)
Q Consensus        82 ~~~~~~~~~~~   92 (176)
                      ...+....+..
T Consensus        88 ~~~~~~~~~~~   98 (100)
T cd00189          88 LEAYEKALELD   98 (100)
T ss_pred             HHHHHHHHccC
Confidence            99998887543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.44  E-value=1.8e-05  Score=57.05  Aligned_cols=89  Identities=17%  Similarity=0.086  Sum_probs=73.6

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      ...|++++|+++|++..+.. +.+...|..+..+|.+.|++++|+..+++...... .+...|..+..+|...|+++.|.
T Consensus        13 ~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg~~~eA~   90 (356)
T PLN03088         13 FVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLEEYQTAK   90 (356)
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCCHHHHH
Confidence            46789999999999998875 33778888888899999999999999998887642 36677888888899999999999


Q ss_pred             HHHHHHHhcCC
Q 030489           83 MMFSKMLEKGP   93 (176)
Q Consensus        83 ~~~~~~~~~~~   93 (176)
                      ..|++..+.+.
T Consensus        91 ~~~~~al~l~P  101 (356)
T PLN03088         91 AALEKGASLAP  101 (356)
T ss_pred             HHHHHHHHhCC
Confidence            99999887653

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

Probab=98.43  E-value=4.9e-05  Score=55.35  Aligned_cols=97  Identities=19%  Similarity=0.171  Sum_probs=49.2

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      ++..+..|...|-+.|+-.+|.+.+-+--+ -++.+..|...|...|....-+++++.+|+...-  +.|+..-|..++.
T Consensus       591 dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmia  667 (840)
T KOG2003|consen  591 DPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIA  667 (840)
T ss_pred             CHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHH
Confidence            344444444444444444444444322111 1233444444455555555555555555555432  4566677766654


Q ss_pred             H-HHhcCCHHHHHHHHHHHHH
Q 030489          106 G-YFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus       106 ~-~~~~g~~~~a~~~~~~m~~  125 (176)
                      . +.+.|++++|+.++++...
T Consensus       668 sc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  668 SCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             HHHHhcccHHHHHHHHHHHHH
Confidence            3 3445777777777766543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.42  E-value=9.1e-05  Score=49.84  Aligned_cols=141  Identities=17%  Similarity=0.117  Sum_probs=96.1

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      ..|+.+.|..+++++..+= +-+..+-..-.-.+--.|++++|+++|+.+.+.. +.|..++-.=+...-..|..-.|++
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            4567777888887776652 2222222222222345677888888888887765 3355666555556666666667777


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC----------------CChHHHHHHHHHHH
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA----------------GRPTEAMQLYDSML  147 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----------------~~~~~a~~~~~~m~  147 (176)
                      -+....+. +..|...|.-+.+.|...|++++|.-+++++.-.  .|...                ...+-+.+++.+..
T Consensus       142 ~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~al  218 (289)
T KOG3060|consen  142 ELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERAL  218 (289)
T ss_pred             HHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            77777766 5669999999999999999999999999998764  33333                55667777777776


Q ss_pred             HC
Q 030489          148 RN  149 (176)
Q Consensus       148 ~~  149 (176)
                      +.
T Consensus       219 kl  220 (289)
T KOG3060|consen  219 KL  220 (289)
T ss_pred             Hh
Confidence            54

>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=98.40  E-value=1.3e-05  Score=52.67  Aligned_cols=105  Identities=22%  Similarity=0.287  Sum_probs=83.9

Q ss_pred             CcChhhHHHHHHHHHh-----cCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC
Q 030489           59 KPNSITFTILIDAFCK-----EGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA  133 (176)
Q Consensus        59 ~~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  133 (176)
                      ..|-.+|..+++.|.+     .|.++-....+..|.+-|+.-|..+|+.|++.+=+ |.+. -..+|+.+-.     ...
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F~-----hyp  116 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEFM-----HYP  116 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHhc-----cCc
Confidence            4588899999998865     46788888999999999999999999999999976 4443 3334444321     122


Q ss_pred             CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccC
Q 030489          134 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSG  170 (176)
Q Consensus       134 ~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  170 (176)
                      .+.+-|++++++|...|+.||..|+..+++.+.+.+.
T Consensus       117 ~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  117 RQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            4568899999999999999999999999999987653

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

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

Probab=98.38  E-value=2.6e-06  Score=65.91  Aligned_cols=67  Identities=24%  Similarity=0.416  Sum_probs=56.7

Q ss_pred             HHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC------------------------CCCcHHHHHHH
Q 030489           48 QLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKG------------------------PKANVVTYSCL  103 (176)
Q Consensus        48 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------------------------~~~~~~~~~~l  103 (176)
                      .++-.++..|+.|+..||..+|.-|+..|+.+.|- +|.-|.-.+                        -.|...||..|
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            46778888999999999999999999999999998 777664321                        25778999999


Q ss_pred             HHHHHhcCCHHH
Q 030489          104 IDGYFKSQNMKS  115 (176)
Q Consensus       104 ~~~~~~~g~~~~  115 (176)
                      ..+|..+||...
T Consensus        90 l~ayr~hGDli~  101 (1088)
T KOG4318|consen   90 LKAYRIHGDLIL  101 (1088)
T ss_pred             HHHHHhccchHH
Confidence            999999999654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.37  E-value=1.5e-05  Score=49.99  Aligned_cols=88  Identities=10%  Similarity=0.033  Sum_probs=77.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +...|++++|.++|+.+....+ -+..-|-.|.-++-..|++++|+..|.......+ -|+..+-.+-.++...|+.+.|
T Consensus        45 ly~~G~l~~A~~~f~~L~~~Dp-~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~A  122 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLTIYDA-WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCYA  122 (157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHHH
Confidence            4578999999999999988753 3778888999999999999999999999988774 4888899999999999999999


Q ss_pred             HHHHHHHHhc
Q 030489           82 TMMFSKMLEK   91 (176)
Q Consensus        82 ~~~~~~~~~~   91 (176)
                      .+-|+..+..
T Consensus       123 ~~aF~~Ai~~  132 (157)
T PRK15363        123 IKALKAVVRI  132 (157)
T ss_pred             HHHHHHHHHH
Confidence            9999988765

>PLN02789 farnesyltranstransferase

Probab=98.36  E-value=0.00028  Score=50.11  Aligned_cols=126  Identities=14%  Similarity=0.066  Sum_probs=86.2

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCC-ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC--HHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR--MDD   80 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~--~~~   80 (176)
                      ..++.++|+.+...+.+.+ +-+..+|+.--.++...| .+++++..++++.+...+ +..+|+.---.+.+.|+  .++
T Consensus        49 ~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~  126 (320)
T PLN02789         49 SDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANK  126 (320)
T ss_pred             cCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHH
Confidence            4567778888888877764 225566776666666666 578888888888776543 55556644444445554  256


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI  132 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  132 (176)
                      +..+++.+.+.+.+ +..+|+...-++...|+++++++.++++.+.+.....
T Consensus       127 el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~s  177 (320)
T PLN02789        127 ELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNS  177 (320)
T ss_pred             HHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchh
Confidence            77777777777655 7788888888888888888888888888766544443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.34  E-value=4.3e-05  Score=47.89  Aligned_cols=118  Identities=16%  Similarity=0.182  Sum_probs=80.4

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcH--HHHHH
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN--SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANV--VTYSC  102 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~  102 (176)
                      ...|..++..+ ..++...+...++.+......-.  ....-.+...+...|++++|...|+........++.  ...-.
T Consensus        12 ~~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~   90 (145)
T PF09976_consen   12 SALYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHH
Confidence            44566666666 58889999999999887632211  122233457788999999999999999987644433  34555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC----------CChHHHHHHHHH
Q 030489          103 LIDGYFKSQNMKSAFDVYEEMCENNISPNIA----------GRPTEAMQLYDS  145 (176)
Q Consensus       103 l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----------~~~~~a~~~~~~  145 (176)
                      |...+...|++++|+..++........+...          |+.++|...|++
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            7788899999999999997633222111111          777777777664

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

Probab=98.33  E-value=5.8e-05  Score=53.62  Aligned_cols=116  Identities=16%  Similarity=0.116  Sum_probs=81.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|+.++|.++.++..+++..|+   ... .-.+.+-++...-++..+...+.. +-++..+.+|-..|.+.+.+.+|
T Consensus       273 li~l~~~~~A~~~i~~~Lk~~~D~~---L~~-~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA  347 (400)
T COG3071         273 LIRLGDHDEAQEIIEDALKRQWDPR---LCR-LIPRLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKA  347 (400)
T ss_pred             HHHcCChHHHHHHHHHHHHhccChh---HHH-HHhhcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHH
Confidence            3567788888888877777665555   222 223456667766666666555442 22446777788888888888888


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      .+.|+...+.  .|+..+|+.+..++.+.|+..+|.+++++..
T Consensus       348 ~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         348 SEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            8888865554  5788888888888888888888888887754

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.33  E-value=4.4e-05  Score=55.03  Aligned_cols=93  Identities=16%  Similarity=0.076  Sum_probs=80.6

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC
Q 030489           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN  112 (176)
Q Consensus        33 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  112 (176)
                      -...+...|++++|++.|.+..+.... +...|..+..+|.+.|++++|+..+++..+.... +...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCC
Confidence            345667899999999999999887533 6778888889999999999999999999988654 78889999999999999


Q ss_pred             HHHHHHHHHHHHHCC
Q 030489          113 MKSAFDVYEEMCENN  127 (176)
Q Consensus       113 ~~~a~~~~~~m~~~~  127 (176)
                      +++|...|++....+
T Consensus        86 ~~eA~~~~~~al~l~  100 (356)
T PLN03088         86 YQTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999999987643

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

Probab=98.31  E-value=0.00012  Score=55.10  Aligned_cols=94  Identities=11%  Similarity=0.089  Sum_probs=48.5

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhCCCCcC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 030489           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLKPN-SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK  109 (176)
Q Consensus        31 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  109 (176)
                      ..+...|-..|++++|+++.+....+  .|+ +..|..-.+.+-+.|++.+|.+.++.....+.. |...-+.....+.+
T Consensus       198 ~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LR  274 (517)
T PF12569_consen  198 YFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLR  274 (517)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHH
Confidence            33344455555555555555555544  232 344444455555555555555555555555443 55555555555555


Q ss_pred             cCCHHHHHHHHHHHHHCC
Q 030489          110 SQNMKSAFDVYEEMCENN  127 (176)
Q Consensus       110 ~g~~~~a~~~~~~m~~~~  127 (176)
                      .|+.++|.+++......+
T Consensus       275 a~~~e~A~~~~~~Ftr~~  292 (517)
T PF12569_consen  275 AGRIEEAEKTASLFTRED  292 (517)
T ss_pred             CCCHHHHHHHHHhhcCCC
Confidence            555555555555544333

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

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

Probab=98.28  E-value=8.9e-05  Score=57.67  Aligned_cols=119  Identities=18%  Similarity=0.231  Sum_probs=99.1

Q ss_pred             hCChhHHHHHHHHHhhCCCCc--cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEP--DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      .+..+....+...+.+.+..|  ++..|.-+..++.+.|++.+|+.+|..+......-+...|-.+..+|...|..+.|.
T Consensus       390 L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~  469 (895)
T KOG2076|consen  390 LKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAI  469 (895)
T ss_pred             ccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHH
Confidence            344455555556666666333  578899999999999999999999999988755557789999999999999999999


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      +.|+......+. +...-..|-..+-+.|++++|.+.++.+.
T Consensus       470 e~y~kvl~~~p~-~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  470 EFYEKVLILAPD-NLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHHHHHHhcCCC-chhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            999999988654 78888889999999999999999999875

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

Probab=98.26  E-value=9.1e-05  Score=53.24  Aligned_cols=97  Identities=9%  Similarity=0.129  Sum_probs=64.0

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCc--HHHHHHH
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGP-KAN--VVTYSCL  103 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~--~~~~~~l  103 (176)
                      ......+...+...|++++|+..+++..+.. +.+...+..+..++...|++++|...+++...... .++  ...|..+
T Consensus       114 ~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~l  192 (355)
T cd05804         114 WYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHL  192 (355)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHH
Confidence            3444455566777778888888887777654 22455666677777777888888887777665432 122  2335566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHH
Q 030489          104 IDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus       104 ~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      ...+...|++++|..++++..
T Consensus       193 a~~~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         193 ALFYLERGDYEAALAIYDTHI  213 (355)
T ss_pred             HHHHHHCCCHHHHHHHHHHHh
Confidence            777777788888888877764

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.

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

Probab=98.26  E-value=0.0002  Score=48.62  Aligned_cols=115  Identities=18%  Similarity=0.211  Sum_probs=62.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh----cCC
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EGR   77 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~   77 (176)
                      |+..|++++|++..+...      +......=...+.+..+++-|.+.+++|.+.   -+..|.+-|..++.+    .+.
T Consensus       118 ~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek  188 (299)
T KOG3081|consen  118 YMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEK  188 (299)
T ss_pred             hhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchh
Confidence            455666666666655411      2222222233344555666666666666653   144455444444432    334


Q ss_pred             HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           78 MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +..|.-+|++|.+. .+|+..+.+....++...|++++|..+++.....
T Consensus       189 ~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  189 IQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK  236 (299)
T ss_pred             hhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            56666666666554 3456666666666666666666666666665543

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.25  E-value=3.6e-05  Score=53.65  Aligned_cols=116  Identities=16%  Similarity=0.150  Sum_probs=55.2

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHH-HHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHH
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICG-YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMF   85 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~   85 (176)
                      ..+.|..+|.+.++.+ ..+.++|-..... +...++.+.|.++|+...+. +..+...|..-++.+.+.++.+.|..+|
T Consensus        16 g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~~~~d~~~aR~lf   93 (280)
T PF05843_consen   16 GIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFLIKLNDINNARALF   93 (280)
T ss_dssp             HHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             ChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHhCcHHHHHHHH
Confidence            3555566665555432 2233333333333 22234444466666555543 2334455555555555556666666666


Q ss_pred             HHHHhcCCCCcH---HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           86 SKMLEKGPKANV---VTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        86 ~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +..... +.++.   ..|...++.=.+.|+.+.+.++.+++.+
T Consensus        94 er~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   94 ERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            655543 22111   3555555555555666655555555543

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.

>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=98.24  E-value=5e-06  Score=44.87  Aligned_cols=53  Identities=23%  Similarity=0.273  Sum_probs=31.6

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV   56 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   56 (176)
                      .+.|++++|+++|+.+.+.. |-+...+..+..+|.+.|++++|..+++.+...
T Consensus         2 l~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hhccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34566666666666666553 225555666666666666666666666665554

...

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

Probab=98.24  E-value=0.0001  Score=60.06  Aligned_cols=113  Identities=15%  Similarity=0.176  Sum_probs=53.1

Q ss_pred             hHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489            9 DAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKM   88 (176)
Q Consensus         9 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~   88 (176)
                      +...++|+++.+..  -...+|..|...|.+...+++|.++++.|.+. +......|...+..+.+.++-++|..++.+.
T Consensus      1514 esl~kVFeRAcqyc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rA 1590 (1710)
T KOG1070|consen 1514 ESLKKVFERACQYC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRA 1590 (1710)
T ss_pred             HHHHHHHHHHHHhc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            44455555555431  12344445555555666666666666655543 1234455555555555555555555555544


Q ss_pred             HhcCCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           89 LEKGPK-ANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        89 ~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      .+.=+. -.+......+..-.+.|+.+.+..+|+...
T Consensus      1591 L~~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll 1627 (1710)
T KOG1070|consen 1591 LKSLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLL 1627 (1710)
T ss_pred             HhhcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHH
Confidence            432111 012222223333344455555555555443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.21  E-value=0.00014  Score=46.97  Aligned_cols=76  Identities=12%  Similarity=0.139  Sum_probs=59.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCcc--HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPD--IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   78 (176)
                      +.+.|++++|...|++..+....++  ...+..+...+.+.|++++|+..+.+..+... -+...+..+...+...|+.
T Consensus        45 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~  122 (172)
T PRK02603         45 AQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP-KQPSALNNIAVIYHKRGEK  122 (172)
T ss_pred             HHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCh
Confidence            4567999999999999987643332  47888999999999999999999999887532 2456666677777777763

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

Probab=98.20  E-value=0.00014  Score=53.99  Aligned_cols=167  Identities=19%  Similarity=0.170  Sum_probs=104.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++.+|.=.|+..++.. |-+...|..|.......++-..|+..+.+-.+.... |....-.|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHHH
Confidence            356788888888888887775 336788888888888888877787777776664322 334444444445555544444


Q ss_pred             HHHHHHH-----------------------------------------H-hcCCCCcHHHHHHHHHHHHhcCCHHHHHHH
Q 030489           82 TMMFSKM-----------------------------------------L-EKGPKANVVTYSCLIDGYFKSQNMKSAFDV  119 (176)
Q Consensus        82 ~~~~~~~-----------------------------------------~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  119 (176)
                      .+.++.-                                         . +.+..+|..+...|--.|.-.|++++|...
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            4444333                                         2 222235666777777777777778888887


Q ss_pred             HHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCCCCcHH-HHHHHHHHhhcccCcccc
Q 030489          120 YEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGIMPDGL-LLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       120 ~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~~p~~~-~~~~l~~~~~~~g~~~~A  174 (176)
                      |+.....  .|+..             .+.++|+..+.+..+.  +|+.. +...|.-+|+..|.+++|
T Consensus       453 f~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA  517 (579)
T KOG1125|consen  453 FEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEA  517 (579)
T ss_pred             HHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHH
Confidence            7776543  44443             6677777777777753  55532 444455556666665554

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

Probab=98.20  E-value=0.00049  Score=52.40  Aligned_cols=166  Identities=14%  Similarity=0.130  Sum_probs=122.1

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.+.+.++-|..+|....+. ++.....|......=-..|..+....++++....- +-....|-...+-+-..|++..|
T Consensus       526 ~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~a  603 (913)
T KOG0495|consen  526 CEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAA  603 (913)
T ss_pred             HHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHH
Confidence            45667777888888887776 34467778777777777888888888888877652 33555666666777788999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHHHHC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m~~~  149 (176)
                      ..++.+..+.... +...|-.-+..-....+++.|..+|.+....  .++..            +..++|++++++..+.
T Consensus       604 r~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~  680 (913)
T KOG0495|consen  604 RVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS  680 (913)
T ss_pred             HHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh
Confidence            9999998888655 8888989999999999999999999887653  33333            8888999988887764


Q ss_pred             CCCCcHH-HHHHHHHHhhcccCcccc
Q 030489          150 GIMPDGL-LLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       150 g~~p~~~-~~~~l~~~~~~~g~~~~A  174 (176)
                        .|+.. .|..+-+.+-+.++++.|
T Consensus       681 --fp~f~Kl~lmlGQi~e~~~~ie~a  704 (913)
T KOG0495|consen  681 --FPDFHKLWLMLGQIEEQMENIEMA  704 (913)
T ss_pred             --CCchHHHHHHHhHHHHHHHHHHHH
Confidence              56655 444555666665555543

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

Probab=98.19  E-value=0.00038  Score=56.94  Aligned_cols=163  Identities=12%  Similarity=0.127  Sum_probs=104.2

Q ss_pred             hhCChhHHHHHHHHHhhC-CCCc---cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHH
Q 030489            4 KECHLDAALKLFGQLTDR-GLEP---DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD   79 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   79 (176)
                      +.++.++|.+++++.... +++-   -...|.++++.-.--|.-+...++|++..+.  .-....|..|...|.+.+..+
T Consensus      1470 elsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~~L~~iy~k~ek~~ 1547 (1710)
T KOG1070|consen 1470 ELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHLKLLGIYEKSEKND 1547 (1710)
T ss_pred             hhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHHHHHHHHHHhhcch
Confidence            456778888888877754 2221   2356777777777777777888888887765  223456777888888888888


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHH
Q 030489           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSM  146 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m  146 (176)
                      +|-++|+.|.+. +.-....|...+..+.+..+-++|..++.+..+.=......             |+.+++..+|+..
T Consensus      1548 ~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgl 1626 (1710)
T KOG1070|consen 1548 EADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGL 1626 (1710)
T ss_pred             hHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHH
Confidence            888888888765 22467788888888888888888888887765532211111             5555555555555


Q ss_pred             HHCCCCCcHHHHHHHHHHhhcccC
Q 030489          147 LRNGIMPDGLLLSTLADYNLQSSG  170 (176)
Q Consensus       147 ~~~g~~p~~~~~~~l~~~~~~~g~  170 (176)
                      ...- +--...|+.++..=.++|+
T Consensus      1627 l~ay-PKRtDlW~VYid~eik~~~ 1649 (1710)
T KOG1070|consen 1627 LSAY-PKRTDLWSVYIDMEIKHGD 1649 (1710)
T ss_pred             HhhC-ccchhHHHHHHHHHHccCC
Confidence            5331 1123345555555444444

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

Probab=98.18  E-value=0.00018  Score=52.74  Aligned_cols=141  Identities=14%  Similarity=0.119  Sum_probs=115.5

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      .|+...|.+-|+..++.... +...|..+..+|...++.++..+.|+.....+.. |+.+|..-...+.-.+++++|..=
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            57788888899888877433 3444888888999999999999999998877643 777888777777788999999999


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHH
Q 030489           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~  148 (176)
                      |++.+...+. +...|--+..+..+.+.+++++..|++....-......           ++++.|.+.|+..++
T Consensus       417 F~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  417 FQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            9999988765 88888888888899999999999999987753322222           999999999998874

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

Probab=98.17  E-value=8.1e-05  Score=58.41  Aligned_cols=167  Identities=16%  Similarity=0.143  Sum_probs=99.9

Q ss_pred             CChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCC-CCcChhhHHHHHHHHHh----------
Q 030489            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-LKPNSITFTILIDAFCK----------   74 (176)
Q Consensus         6 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~----------   74 (176)
                      +...+|...++...+.+ ..++..+..+...+.+...|..|.+-|....+.- ..+|..+.-.|-+.|..          
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            34445555555554432 3344455455555555555555555444433321 11343333344443332          


Q ss_pred             --cCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCCC----------CChHHHHH
Q 030489           75 --EGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI-SPNIA----------GRPTEAMQ  141 (176)
Q Consensus        75 --~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~----------~~~~~a~~  141 (176)
                        .+..++|+++|.+..+..+. |...-|-+.-.++..|++.+|..+|.++.+... .++..          |++-.|++
T Consensus       623 k~kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIq  701 (1018)
T KOG2002|consen  623 KEKKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQ  701 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHH
Confidence              23456788888887777654 777777788888888888888888888876544 22222          88888888


Q ss_pred             HHHHHH-HCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          142 LYDSML-RNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       142 ~~~~m~-~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .|+... ...-.-+..+...|..++.+.|++.+|
T Consensus       702 mYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~ea  735 (1018)
T KOG2002|consen  702 MYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEA  735 (1018)
T ss_pred             HHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHH
Confidence            887766 333344566777777888777776654

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

Probab=98.16  E-value=0.00017  Score=57.31  Aligned_cols=118  Identities=14%  Similarity=0.104  Sum_probs=84.4

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc-------------------Chh
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP-------------------NSI   63 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-------------------~~~   63 (176)
                      .+.+++++|.++.+...+..+. ....|-.+...+.+.++..++..+  .+... +..                   +..
T Consensus        42 ~~~~~~deai~i~~~~l~~~P~-~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~-~~~~~~~~~ve~~~~~i~~~~~~k~  117 (906)
T PRK14720         42 KSENLTDEAKDICEEHLKEHKK-SISALYISGILSLSRRPLNDSNLL--NLIDS-FSQNLKWAIVEHICDKILLYGENKL  117 (906)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCc-ceehHHHHHHHHHhhcchhhhhhh--hhhhh-cccccchhHHHHHHHHHHhhhhhhH
Confidence            3678888888888866665321 233333333356666666665555  22221 111                   225


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        64 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+..+..+|-+.|+.++|..+|+++.+.++. |..+.|.+...|... ++++|.+++.+....
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~  178 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-DKEKAITYLKKAIYR  178 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH
Confidence            6677888899999999999999999999855 999999999999999 999999999887654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.15  E-value=7.9e-05  Score=51.49  Aligned_cols=40  Identities=15%  Similarity=0.068  Sum_probs=22.9

Q ss_pred             CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          134 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +++....+-++-+...+. -...||..++-.||+..-++.|
T Consensus       290 ~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCKNeyf~lA  329 (459)
T KOG4340|consen  290 ARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCKNEYFDLA  329 (459)
T ss_pred             CCccccHHHHHHHHhcCC-CChHHHHHHHHHHhhhHHHhHH
Confidence            444444444444443322 3356888888888887655544

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

Probab=98.12  E-value=0.00072  Score=51.56  Aligned_cols=163  Identities=13%  Similarity=0.076  Sum_probs=109.5

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      .|++..|..++.+..+.++. +...|-.-+..-.....+++|..+|.+....  .|+...|.--++.-.-.++.++|.++
T Consensus       597 agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rl  673 (913)
T KOG0495|consen  597 AGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRL  673 (913)
T ss_pred             cCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHH
Confidence            56777777777777766533 6677777777777777777777777776553  55666666656655666777777777


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCC
Q 030489           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGI  151 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~  151 (176)
                      +++..+. ++.-...|..+-..+-+.++.+.|...|..=..  ..|+..             |..-+|..++++..-.+ 
T Consensus       674 lEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k--~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-  749 (913)
T KOG0495|consen  674 LEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK--KCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-  749 (913)
T ss_pred             HHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc--cCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-
Confidence            7776665 333455566666666677777777766654221  233333             78888888888887553 


Q ss_pred             CCcHHHHHHHHHHhhcccCcccc
Q 030489          152 MPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       152 ~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .-+...|...|..=.+.|+.++|
T Consensus       750 Pk~~~lwle~Ir~ElR~gn~~~a  772 (913)
T KOG0495|consen  750 PKNALLWLESIRMELRAGNKEQA  772 (913)
T ss_pred             CCcchhHHHHHHHHHHcCCHHHH
Confidence            23456777888888888887765

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.12  E-value=0.00015  Score=50.56  Aligned_cols=133  Identities=11%  Similarity=0.119  Sum_probs=99.0

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHH-HHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDA-FCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (176)
                      .+|..+|+..-+.+..+.|.++|.+..+.+ ..+..+|-..... +.-.++.+.|.++|+...+. +..+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            478899999999999999999999998653 2244455444444 33356777799999999887 55689999999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCC-C--------------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHh
Q 030489          107 YFKSQNMKSAFDVYEEMCENNISPNI-A--------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN  165 (176)
Q Consensus       107 ~~~~g~~~~a~~~~~~m~~~~~~~~~-~--------------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~  165 (176)
                      +.+.|+.+.|..+|++.... +.+.. .              |+.+.+.++.+++.+.  .|+...+..+++-|
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHh
Confidence            99999999999999998765 44444 2              9999999999999874  56656666665544

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.

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

Probab=98.10  E-value=0.00012  Score=49.65  Aligned_cols=148  Identities=22%  Similarity=0.256  Sum_probs=78.4

Q ss_pred             HHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 030489           12 LKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (176)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   91 (176)
                      -++.+.+.......+......-...|...+++++|++..+...      +......=+..+.+..+.+-|.+.+++|.+.
T Consensus        93 ~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i  166 (299)
T KOG3081|consen   93 ASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI  166 (299)
T ss_pred             HHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            3444444444334333333344455667777777776665511      2333333345556666777777777777654


Q ss_pred             CCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHHHHCCCCCcH
Q 030489           92 GPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSMLRNGIMPDG  155 (176)
Q Consensus        92 ~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m~~~g~~p~~  155 (176)
                      .   +..|.+-|..++.+    .+....|.-+|++|.+. ..|+..            +++++|..+++........ ++
T Consensus       167 d---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dp  241 (299)
T KOG3081|consen  167 D---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DP  241 (299)
T ss_pred             c---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CH
Confidence            2   44555555555544    34567777777777542 222222            7777777777777644222 33


Q ss_pred             HHHHHHHHHhhcccC
Q 030489          156 LLLSTLADYNLQSSG  170 (176)
Q Consensus       156 ~~~~~l~~~~~~~g~  170 (176)
                      .|...++-+-...|.
T Consensus       242 etL~Nliv~a~~~Gk  256 (299)
T KOG3081|consen  242 ETLANLIVLALHLGK  256 (299)
T ss_pred             HHHHHHHHHHHHhCC
Confidence            444444433333333

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

Probab=98.10  E-value=0.00062  Score=51.53  Aligned_cols=155  Identities=15%  Similarity=0.128  Sum_probs=92.9

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      ..|+.++|.+....-.... .-+...|+.+.-.+....++++|++.|......+.. |...+.-+.-.-+..++++....
T Consensus        53 ~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslLQ~QmRd~~~~~~  130 (700)
T KOG1156|consen   53 CLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKD-NLQILRDLSLLQIQMRDYEGYLE  130 (700)
T ss_pred             cccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHHHhhhhHHH
Confidence            4566777777766655543 336677777777777777888888888777665422 44555544444455555555555


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCCC-----------------------------
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI-SPNIA-----------------------------  133 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~-----------------------------  133 (176)
                      ...++.+... .....|..+..++.-.|++..|..+.++..+... .|+..                             
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 TRNQLLQLRP-SQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLL  209 (700)
T ss_pred             HHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHH
Confidence            5444444422 1334455555555555566666555555544332 11111                             


Q ss_pred             -----------------------CChHHHHHHHHHHHHCCCCCcHHHHHHHHH
Q 030489          134 -----------------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLAD  163 (176)
Q Consensus       134 -----------------------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~  163 (176)
                                             ++.++|..++..+...  .||..-|...+.
T Consensus       210 ~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~  260 (700)
T KOG1156|consen  210 DNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLE  260 (700)
T ss_pred             hhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHH
Confidence                                   8999999999999876  677766654443

>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=98.10  E-value=4e-05  Score=41.43  Aligned_cols=63  Identities=22%  Similarity=0.352  Sum_probs=35.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 030489           62 SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ-NMKSAFDVYEEMCE  125 (176)
Q Consensus        62 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~  125 (176)
                      ..+|..+...+...|++++|+..|++.++.+.. +...|..+..+|.+.| ++++|++.+++..+
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            344555555566666666666666666655433 5555666666666665 46666666655443

...

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

Probab=98.09  E-value=0.00023  Score=54.45  Aligned_cols=145  Identities=18%  Similarity=0.148  Sum_probs=110.3

Q ss_pred             CchhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-----CC-----------------
Q 030489            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-----QL-----------------   58 (176)
Q Consensus         1 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~-----------------   58 (176)
                      +|+..|+..+|..+..+..+.  +|++..|..+.+......-+++|.++.+.--..     |.                 
T Consensus       433 CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~  510 (777)
T KOG1128|consen  433 CYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLER  510 (777)
T ss_pred             HHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHH
Confidence            367788888888888887774  788888888888887777788888777653221     00                 


Q ss_pred             -----CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC
Q 030489           59 -----KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA  133 (176)
Q Consensus        59 -----~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  133 (176)
                           +.-..+|..+--+..+.+++..|.+.|..-....+. +...||.+-.+|.+.++-.+|...+.+..+.+..++..
T Consensus       511 sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~i  589 (777)
T KOG1128|consen  511 SLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQI  589 (777)
T ss_pred             HhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCee
Confidence                 112334444445556677888888888877766543 77789999999999999999999999998877666665


Q ss_pred             -----------CChHHHHHHHHHHHH
Q 030489          134 -----------GRPTEAMQLYDSMLR  148 (176)
Q Consensus       134 -----------~~~~~a~~~~~~m~~  148 (176)
                                 |.+++|++.+.++..
T Consensus       590 WENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  590 WENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             eechhhhhhhcccHHHHHHHHHHHHH
Confidence                       999999999998873

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

Probab=98.08  E-value=0.0012  Score=49.96  Aligned_cols=122  Identities=11%  Similarity=0.099  Sum_probs=97.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |-..|++++|+++.+...++. |..+..|..-.+.+-..|++.+|.+.++..++-... |...-+-....+.+.|+.++|
T Consensus       204 yd~~g~~~~Al~~Id~aI~ht-Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A  281 (517)
T PF12569_consen  204 YDYLGDYEKALEYIDKAIEHT-PTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEA  281 (517)
T ss_pred             HHHhCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHH
Confidence            346789999999999999884 334788889999999999999999999998877543 777777788889999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHH--------HHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTY--------SCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~--------~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      .+++....+.+..|....+        .....+|.+.|++..|++-|..+.+
T Consensus       282 ~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  282 EKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            9999999877654443332        3356788999999999999977643

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 [], [].

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.08  E-value=0.00016  Score=46.40  Aligned_cols=85  Identities=12%  Similarity=0.028  Sum_probs=63.1

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCc--cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHH-------
Q 030489            3 IKECHLDAALKLFGQLTDRGLEP--DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFC-------   73 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~-------   73 (176)
                      ...|++++|+..|+........+  ...+|..+...+...|++++|+..++...... +....++..+...+.       
T Consensus        46 ~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~i~~~~~~~~~  124 (168)
T CHL00033         46 QSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAVICHYRGEQAI  124 (168)
T ss_pred             HHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHhhHHHH
Confidence            45799999999999997653332  34688999999999999999999999988653 224455666666666       


Q ss_pred             hcCCHHHHHHHHHHH
Q 030489           74 KEGRMDDATMMFSKM   88 (176)
Q Consensus        74 ~~~~~~~a~~~~~~~   88 (176)
                      +.|+++.|...+++.
T Consensus       125 ~~g~~~~A~~~~~~a  139 (168)
T CHL00033        125 EQGDSEIAEAWFDQA  139 (168)
T ss_pred             HcccHHHHHHHHHHH
Confidence            778877665555443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.07  E-value=4.9e-05  Score=40.58  Aligned_cols=54  Identities=22%  Similarity=0.365  Sum_probs=26.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           70 DAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      ..+.+.|++++|...|+++.+..+. +...+..+..++...|++++|...|++..
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444555555555555555544422 44555555555555555555555555543

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

Probab=98.03  E-value=0.00029  Score=52.45  Aligned_cols=139  Identities=19%  Similarity=0.104  Sum_probs=105.0

Q ss_pred             ChhHHHHHHHHHh-hCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHH
Q 030489            7 HLDAALKLFGQLT-DRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMF   85 (176)
Q Consensus         7 ~~~~a~~~~~~~~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~   85 (176)
                      .+....++|-++. +.+..+|+.+...|.-.|.-.|++++|++.|+...+... -|..+||.|-.+++...+.++|+..|
T Consensus       409 ~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~P-nd~~lWNRLGAtLAN~~~s~EAIsAY  487 (579)
T KOG1125|consen  409 HLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVKP-NDYLLWNRLGATLANGNRSEEAISAY  487 (579)
T ss_pred             HHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcCC-chHHHHHHhhHHhcCCcccHHHHHHH
Confidence            3455666776665 444457889999999999999999999999999988653 37889999999999999999999999


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC---CCCC-CChHHHHHHHHHHH
Q 030489           86 SKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS---PNIA-GRPTEAMQLYDSML  147 (176)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~---~~~~-~~~~~a~~~~~~m~  147 (176)
                      .+..+..+. -+++...|.-.|...|.+++|.+.|-........   +... ..-+.+++.++...
T Consensus       488 ~rALqLqP~-yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~al  552 (579)
T KOG1125|consen  488 NRALQLQPG-YVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLAL  552 (579)
T ss_pred             HHHHhcCCC-eeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHH
Confidence            999988544 6677777888899999999999988766442222   2211 22355666665443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.01  E-value=0.00059  Score=41.21  Aligned_cols=89  Identities=22%  Similarity=0.255  Sum_probs=40.0

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhCCCCcC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CcHHHHHHHHHHHHh
Q 030489           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPN--SITFTILIDAFCKEGRMDDATMMFSKMLEKGPK--ANVVTYSCLIDGYFK  109 (176)
Q Consensus        34 l~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~  109 (176)
                      ..++-..|+.++|+.+|++....|...+  ...+-.+-+++...|++++|..+|++.....+.  .+......+.-++..
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            3444455555555555555555544322  122333444555555555555555555443211  011111222234444


Q ss_pred             cCCHHHHHHHHHH
Q 030489          110 SQNMKSAFDVYEE  122 (176)
Q Consensus       110 ~g~~~~a~~~~~~  122 (176)
                      .|++++|++.+-.
T Consensus        88 ~gr~~eAl~~~l~  100 (120)
T PF12688_consen   88 LGRPKEALEWLLE  100 (120)
T ss_pred             CCCHHHHHHHHHH
Confidence            5555555555443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.00  E-value=0.0013  Score=45.37  Aligned_cols=96  Identities=18%  Similarity=0.270  Sum_probs=72.1

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      .+.++|++|+..|.+.++.. +-|..-|..-..+|.+.|.++.|++=.+........ ...+|..|-.+|...|++++|.
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-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYEEAI  169 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHHHHH
Confidence            46788888888888888774 337777778888888888888888888777665322 4567888888888888888888


Q ss_pred             HHHHHHHhcCCCCcHHHHHH
Q 030489           83 MMFSKMLEKGPKANVVTYSC  102 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~  102 (176)
                      +.|+...+.  .|+-.+|-.
T Consensus       170 ~aykKaLel--dP~Ne~~K~  187 (304)
T KOG0553|consen  170 EAYKKALEL--DPDNESYKS  187 (304)
T ss_pred             HHHHhhhcc--CCCcHHHHH
Confidence            888887765  345444433

>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=98.00  E-value=6.8e-05  Score=40.50  Aligned_cols=66  Identities=23%  Similarity=0.247  Sum_probs=56.0

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC-CHHHHHHHHHHHHhcC
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG-RMDDATMMFSKMLEKG   92 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~   92 (176)
                      +..+|..+...+...|++++|+..|.+..+... -+...|..+..++.+.| ++++|++.+++..+..
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p-~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~   68 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDP-NNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLD   68 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHST-THHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Confidence            567888999999999999999999999888753 36778888889999999 7999999999887653

...

>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=98.00  E-value=4e-05  Score=41.25  Aligned_cols=54  Identities=24%  Similarity=0.395  Sum_probs=39.7

Q ss_pred             HhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 030489           38 CSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKG   92 (176)
Q Consensus        38 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   92 (176)
                      .+.|++++|+++|+.+...... +......+..+|.+.|++++|.++++.+....
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~   55 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQD   55 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            4677888888888887766432 66667777888888888888888888877764

...

>PLN02789 farnesyltranstransferase

Probab=97.99  E-value=0.0024  Score=45.42  Aligned_cols=157  Identities=13%  Similarity=0.078  Sum_probs=108.3

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCCh--hHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHH
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRL--DEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~--~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      +++++++.++.+.+.+++ +..+|+..-..+.+.|..  ++++.+++.+.+...+ |..+|+...-++...|+++++++.
T Consensus        87 ~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~  164 (320)
T PLN02789         87 DLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEY  164 (320)
T ss_pred             hHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHH
Confidence            578899999998887544 667787666566666653  6788888888877644 788888888888888999999999


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhc---CCH----HHHHHHHHHHHHCCCCCCCC---------------CChHHHHHH
Q 030489           85 FSKMLEKGPKANVVTYSCLIDGYFKS---QNM----KSAFDVYEEMCENNISPNIA---------------GRPTEAMQL  142 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~----~~a~~~~~~m~~~~~~~~~~---------------~~~~~a~~~  142 (176)
                      ++++++.++. +..+|+.....+.+.   |.+    ++.+....+.......-...               +...+|.+.
T Consensus       165 ~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~  243 (320)
T PLN02789        165 CHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSV  243 (320)
T ss_pred             HHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHH
Confidence            9999988766 788888877766554   222    45666665655443222121               233457777


Q ss_pred             HHHHHHCCCCCcHHHHHHHHHHhhc
Q 030489          143 YDSMLRNGIMPDGLLLSTLADYNLQ  167 (176)
Q Consensus       143 ~~~m~~~g~~p~~~~~~~l~~~~~~  167 (176)
                      +.+....+ ..+......|+..|+.
T Consensus       244 ~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        244 CLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             HHHhhccc-CCcHHHHHHHHHHHHh
Confidence            77766532 2245566677777764

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.97  E-value=9.1e-05  Score=39.49  Aligned_cols=57  Identities=23%  Similarity=0.318  Sum_probs=32.4

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 030489           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (176)
Q Consensus        34 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   91 (176)
                      ...+.+.|++++|+..|++..+.. +-+...+..+..++...|++++|...|++..+.
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344556666666666666666553 224555555556666666666666666666544

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.97  E-value=0.00068  Score=40.93  Aligned_cols=101  Identities=21%  Similarity=0.197  Sum_probs=75.8

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCcc--HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC----hhhHHHHHHHHHhcC
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPD--IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN----SITFTILIDAFCKEG   76 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~   76 (176)
                      -..|+.++|+.+|++....|....  ...+-.+...+...|++++|+.+++......  |+    ......+..++...|
T Consensus        12 d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~~~g   89 (120)
T PF12688_consen   12 DSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALYNLG   89 (120)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHHCC
Confidence            357999999999999999886654  4577788999999999999999999887652  33    222233445778899


Q ss_pred             CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 030489           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK  109 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  109 (176)
                      +.++|...+-.....    +...|..-|..|..
T Consensus        90 r~~eAl~~~l~~la~----~~~~y~ra~~~ya~  118 (120)
T PF12688_consen   90 RPKEALEWLLEALAE----TLPRYRRAIRFYAD  118 (120)
T ss_pred             CHHHHHHHHHHHHHH----HHHHHHHHHHHHHh
Confidence            999999988766532    44466666666653

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

Probab=97.97  E-value=0.001  Score=49.65  Aligned_cols=160  Identities=16%  Similarity=0.142  Sum_probs=89.8

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC--C-------------------------
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV--Q-------------------------   57 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~-------------------------   57 (176)
                      .|+..+|.+.|.....-. +.-...|-.+...|+-.|..++|+..|...-+-  |                         
T Consensus       325 i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff  403 (611)
T KOG1173|consen  325 IGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFF  403 (611)
T ss_pred             hcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHH
Confidence            356666666665544332 112345555555555555555555555433221  1                         


Q ss_pred             -----C-CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHh----cCC--CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           58 -----L-KPNSITFTILIDAFCKEGRMDDATMMFSKMLE----KGP--KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        58 -----~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                           + +.|+...+-+--.....+.+.+|..+|+....    .+.  ..-..+++.|..+|.+.+.+++|+..+++...
T Consensus       404 ~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~  483 (611)
T KOG1173|consen  404 KQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALL  483 (611)
T ss_pred             HHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHH
Confidence                 1 12344444444444455666677777665541    111  11334577777788888888888888887665


Q ss_pred             CCCCCCCC-----------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhc
Q 030489          126 NNISPNIA-----------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQ  167 (176)
Q Consensus       126 ~~~~~~~~-----------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~  167 (176)
                      ........           |.++.|.+.|.+...  +.|+..+...++..+..
T Consensus       484 l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  484 LSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAIE  534 (611)
T ss_pred             cCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHHH
Confidence            43322222           888888888877763  47777777766665543

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.95  E-value=0.0025  Score=44.13  Aligned_cols=104  Identities=15%  Similarity=0.179  Sum_probs=85.5

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC---CHHHHHHHHHHHHhcCCCCcHHHH
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG---RMDDATMMFSKMLEKGPKANVVTY  100 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~  100 (176)
                      +-|...|-.|..+|...|++..|..-|....+.. .+++..+..+..++..+.   .-.++.++|+++...+.. ++.+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~-~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-NIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-cHHHH
Confidence            4589999999999999999999999999988763 336666666666654432   457899999999988755 88899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 030489          101 SCLIDGYFKSQNMKSAFDVYEEMCENNIS  129 (176)
Q Consensus       101 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  129 (176)
                      ..|...+...|++.+|...|+.|.+....
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~  259 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPA  259 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999999876433

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

Probab=97.93  E-value=0.00051  Score=51.47  Aligned_cols=117  Identities=15%  Similarity=0.210  Sum_probs=81.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHH--HhcCCHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAF--CKEGRMD   79 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~--~~~~~~~   79 (176)
                      +.+.+++++|+.....+...+ +-+...+..-+-+..+.+++++|+.+.+.-..  .. ....|. +=.+|  .+.+..+
T Consensus        22 ~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~--~~-~~~~~~-fEKAYc~Yrlnk~D   96 (652)
T KOG2376|consen   22 HGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA--LL-VINSFF-FEKAYCEYRLNKLD   96 (652)
T ss_pred             hccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch--hh-hcchhh-HHHHHHHHHcccHH
Confidence            456789999999999999876 55778888888889999999999966543221  11 111111 23444  5788899


Q ss_pred             HHHHHHHHHHhcCCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 030489           80 DATMMFSKMLEKGPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  128 (176)
                      +|.+.++-     ..+ +..+...-...+.+.|++++|+.+|+.+.+++.
T Consensus        97 ealk~~~~-----~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~  141 (652)
T KOG2376|consen   97 EALKTLKG-----LDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS  141 (652)
T ss_pred             HHHHHHhc-----ccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            99988872     222 233455556677888999999999998865543

>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=97.92  E-value=0.00063  Score=41.47  Aligned_cols=87  Identities=14%  Similarity=0.098  Sum_probs=71.7

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHh---------------CCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHH-
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTC---------------VQLKPNSITFTILIDAFCKEGRMDDATMMFSKML-   89 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~---------------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-   89 (176)
                      |..++..+|.++++.|+.+....+.+..-.               ....|+..+..+++.+|+..+++..|.++.+.+. 
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            467889999999999999999888875421               1245788999999999999999999999999887 


Q ss_pred             hcCCCCcHHHHHHHHHHHHhcCC
Q 030489           90 EKGPKANVVTYSCLIDGYFKSQN  112 (176)
Q Consensus        90 ~~~~~~~~~~~~~l~~~~~~~g~  112 (176)
                      ..+++.+..+|..|++.....-+
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v~s~  103 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYVLSS  103 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHHhcC
Confidence            56788889999999986655433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.92  E-value=0.0013  Score=49.04  Aligned_cols=164  Identities=15%  Similarity=0.237  Sum_probs=100.9

Q ss_pred             hhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCC---ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHH
Q 030489            8 LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN---RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      .+++.+++++..+.-...+..+|..+...=-..-   ..+.....++++...-..--.-+|...|+.-.+..-+..|..+
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            3455566655544322334444444333221111   2556666666666542222234567778887788888888888


Q ss_pred             HHHHHhcCCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHH-HHHCCCCCCCC----------CChHHHHHHHHHHHHCCCC
Q 030489           85 FSKMLEKGPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEE-MCENNISPNIA----------GRPTEAMQLYDSMLRNGIM  152 (176)
Q Consensus        85 ~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~-m~~~~~~~~~~----------~~~~~a~~~~~~m~~~g~~  152 (176)
                      |.+..+.+..+ .+.+.+++|+-||. ++..-|.++|+. |+..|-.|-..          ++-+.+..+|++....++.
T Consensus       389 F~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~  467 (656)
T KOG1914|consen  389 FKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLS  467 (656)
T ss_pred             HHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCC
Confidence            88888776665 77778888887764 577788888875 33333333322          7778888888888876665


Q ss_pred             Cc--HHHHHHHHHHhhcccCcc
Q 030489          153 PD--GLLLSTLADYNLQSSGSQ  172 (176)
Q Consensus       153 p~--~~~~~~l~~~~~~~g~~~  172 (176)
                      |+  ...|..++..=+.-|++.
T Consensus       468 ~~ks~~Iw~r~l~yES~vGdL~  489 (656)
T KOG1914|consen  468 ADKSKEIWDRMLEYESNVGDLN  489 (656)
T ss_pred             hhhhHHHHHHHHHHHHhcccHH
Confidence            55  357777777766666653

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.91  E-value=0.00053  Score=47.91  Aligned_cols=25  Identities=24%  Similarity=0.352  Sum_probs=11.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489          100 YSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus       100 ~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      +..+...+.+.|++++|.++|+++.
T Consensus       158 ~~~~A~l~~~l~~y~~A~~~~e~~~  182 (282)
T PF14938_consen  158 LLKAADLYARLGRYEEAIEIYEEVA  182 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3334444444444444444444443

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

Probab=97.91  E-value=0.0019  Score=47.57  Aligned_cols=114  Identities=12%  Similarity=0.156  Sum_probs=53.3

Q ss_pred             CChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHH
Q 030489            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMF   85 (176)
Q Consensus         6 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~   85 (176)
                      +++..|.++|++...-. ..+...|-..+.+=.++.....|..++++....-...| ..|.--+-.=-..|++..|.++|
T Consensus        87 ~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ymEE~LgNi~gaRqif  164 (677)
T KOG1915|consen   87 KEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYMEEMLGNIAGARQIF  164 (677)
T ss_pred             HHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHHHHHhcccHHHHHHH
Confidence            44555666666655443 23555555555555555555555555555444311111 11222222222334555555555


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           86 SKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      +.-.+.  .|+...|++.|+.=.+-..++.|..++++.
T Consensus       165 erW~~w--~P~eqaW~sfI~fElRykeieraR~IYerf  200 (677)
T KOG1915|consen  165 ERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERF  200 (677)
T ss_pred             HHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            544432  345555555555555555555555555544

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.91  E-value=0.0013  Score=45.46  Aligned_cols=100  Identities=18%  Similarity=0.156  Sum_probs=76.5

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc--ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CcHHHHHH
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP--NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK--ANVVTYSC  102 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~  102 (176)
                      ...|...+....+.|++++|+..|+...+.....  ....+..+..+|...|++++|...|+.+.+.-+.  .....+-.
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            3456666666677899999999999988763221  1356778889999999999999999999865322  23455666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC
Q 030489          103 LIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       103 l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +...+...|++++|..+|+++.+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            677888999999999999988764

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.88  E-value=0.0012  Score=41.28  Aligned_cols=60  Identities=20%  Similarity=0.328  Sum_probs=49.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        65 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      ...++..+...|++++|..+.+.+....+ .+...|..+|.+|...|+...|.+.|+++..
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~dP-~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALDP-YDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHST-T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            34566677889999999999999998865 4999999999999999999999999998743

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK15331 chaperone protein SicA; Provisional

Probab=97.86  E-value=0.0022  Score=40.67  Aligned_cols=112  Identities=13%  Similarity=0.060  Sum_probs=82.2

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 030489           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS  110 (176)
Q Consensus        31 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  110 (176)
                      -....-+...|++++|..+|.-+...++- +..-+..|..++-..+++++|...|......+.. |..++-....+|...
T Consensus        41 Y~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l  118 (165)
T PRK15331         41 YAHAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLM  118 (165)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHh
Confidence            34455566899999999999888776543 5666777778888889999999999887766543 666777888899999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHHHHH
Q 030489          111 QNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSML  147 (176)
Q Consensus       111 g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~~m~  147 (176)
                      |+.+.|...|+.....   |....-.++|..+++.+.
T Consensus       119 ~~~~~A~~~f~~a~~~---~~~~~l~~~A~~~L~~l~  152 (165)
T PRK15331        119 RKAAKARQCFELVNER---TEDESLRAKALVYLEALK  152 (165)
T ss_pred             CCHHHHHHHHHHHHhC---cchHHHHHHHHHHHHHHH
Confidence            9999999999887762   332233344555555554

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

Probab=97.85  E-value=0.0055  Score=45.15  Aligned_cols=102  Identities=20%  Similarity=0.211  Sum_probs=69.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CC
Q 030489           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GR  135 (176)
Q Consensus        69 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~  135 (176)
                      ...+...|.++.|+..++.+...-+ -|...+....+.+.+.++..+|.+.++.+....  |+..             |+
T Consensus       313 A~~~~~~~~~d~A~~~l~~L~~~~P-~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~--P~~~~l~~~~a~all~~g~  389 (484)
T COG4783         313 ALQTYLAGQYDEALKLLQPLIAAQP-DNPYYLELAGDILLEANKAKEAIERLKKALALD--PNSPLLQLNLAQALLKGGK  389 (484)
T ss_pred             HHHHHHhcccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCccHHHHHHHHHHHhcCC
Confidence            3344566777777777777776643 366666666777778888888888887776543  3322             77


Q ss_pred             hHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          136 PTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       136 ~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +.+|+.++...... .+-++..|..|..+|...|+..+|
T Consensus       390 ~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a  427 (484)
T COG4783         390 PQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEA  427 (484)
T ss_pred             hHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHH
Confidence            77777777777644 244566788888888888887654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.81  E-value=0.00081  Score=46.42  Aligned_cols=91  Identities=11%  Similarity=0.066  Sum_probs=71.3

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCcc--HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC--CcChhhHHHHHHHHHhcCCH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPD--IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL--KPNSITFTILIDAFCKEGRM   78 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~   78 (176)
                      .+.|++++|...|+.+.+.-+...  ...+.-+..+|...|++++|...|+.+.+.-.  +.....+..+..++...|+.
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            346899999999999998743221  46778899999999999999999999986521  12344555566778899999


Q ss_pred             HHHHHHHHHHHhcCC
Q 030489           79 DDATMMFSKMLEKGP   93 (176)
Q Consensus        79 ~~a~~~~~~~~~~~~   93 (176)
                      ++|..+|+.+++..+
T Consensus       234 ~~A~~~~~~vi~~yP  248 (263)
T PRK10803        234 AKAKAVYQQVIKKYP  248 (263)
T ss_pred             HHHHHHHHHHHHHCc
Confidence            999999999988743

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.79  E-value=0.0004  Score=43.49  Aligned_cols=96  Identities=17%  Similarity=0.283  Sum_probs=65.7

Q ss_pred             hCChhHHHHHHHHHhhC--CC-Ccc------------------HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChh
Q 030489            5 ECHLDAALKLFGQLTDR--GL-EPD------------------IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI   63 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~--~~-~~~------------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~   63 (176)
                      .++.+.+.+.+.++...  |. -++                  ..+...++..+...|++++|+.++..+.... +.|..
T Consensus        19 ~~~~~~~~~~~~~al~ly~G~~l~~~~~~~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~   97 (146)
T PF03704_consen   19 AGDPEEAIELLEEALALYRGDFLPDLDDEEWVEPERERLRELYLDALERLAEALLEAGDYEEALRLLQRALALD-PYDEE   97 (146)
T ss_dssp             TT-HHHHHHHHHHHHTT--SSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HH
T ss_pred             CCCHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHH
Confidence            45667777777776653  21 111                  1234566677778999999999999998875 44888


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHH-----hcCCCCcHHHHH
Q 030489           64 TFTILIDAFCKEGRMDDATMMFSKML-----EKGPKANVVTYS  101 (176)
Q Consensus        64 ~~~~ll~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~~  101 (176)
                      .|..+|.+|...|+...|.++|+.+.     +.|+.|+..+-.
T Consensus        98 ~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   98 AYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            99999999999999999999998875     468888876643

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.79  E-value=0.00054  Score=47.26  Aligned_cols=90  Identities=19%  Similarity=0.225  Sum_probs=76.1

Q ss_pred             HHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH
Q 030489           35 CGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK  114 (176)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  114 (176)
                      .-..+.+++.+|+..|.+..+.... |...|..=..+|.+.|+++.|++-.+..+..+.. ...+|..|-.+|...|+++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHH
Confidence            3456788999999999999886422 6666777788999999999999999998887654 7889999999999999999


Q ss_pred             HHHHHHHHHHHC
Q 030489          115 SAFDVYEEMCEN  126 (176)
Q Consensus       115 ~a~~~~~~m~~~  126 (176)
                      +|.+.|++..+.
T Consensus       167 ~A~~aykKaLel  178 (304)
T KOG0553|consen  167 EAIEAYKKALEL  178 (304)
T ss_pred             HHHHHHHhhhcc
Confidence            999999887653

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.78  E-value=0.0025  Score=48.38  Aligned_cols=119  Identities=14%  Similarity=0.118  Sum_probs=76.6

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCC--------hhHHHHHHHHHHhC-CCCcChhhHHHHHHHHHhcCC
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNR--------LDEAVQLFEKLTCV-QLKPNSITFTILIDAFCKEGR   77 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~--------~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~   77 (176)
                      +.+.|.++|++..+.. |-....|..+..++.....        +..+.+........ ....+...|..+.-.....|+
T Consensus       357 ~~~~A~~lle~Ai~ld-P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~  435 (517)
T PRK10153        357 SLNKASDLLEEILKSE-PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALVKGK  435 (517)
T ss_pred             HHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCC
Confidence            4678888888888773 2245555554444433221        22333333332221 123345667766666667788


Q ss_pred             HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 030489           78 MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  128 (176)
                      +++|...+++....+  |+...|..+...+...|++++|.+.+++....+.
T Consensus       436 ~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P  484 (517)
T PRK10153        436 TDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRP  484 (517)
T ss_pred             HHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            899998888888775  4677888888888888999998888888765443

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

Probab=97.78  E-value=0.0038  Score=45.33  Aligned_cols=164  Identities=14%  Similarity=0.147  Sum_probs=107.5

Q ss_pred             ChhHHHHHHHHHhh-CCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChh-hHHHHHHHHHhcCCHHHHHHH
Q 030489            7 HLDAALKLFGQLTD-RGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus         7 ~~~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      +...|..++-.+.. .-++-|++....+.+.+...|+.++|+..|++....  .|+.. ....-.-.+.+.|+.+....+
T Consensus       211 ~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L  288 (564)
T KOG1174|consen  211 KHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSAL  288 (564)
T ss_pred             ccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHH
Confidence            33344444433322 235667888888888888899998888888887654  23221 111122234567777777777


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHCCCCC
Q 030489           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRNGIMP  153 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~g~~p  153 (176)
                      ...+.... +.....|-.-........++..|+.+-++..+.+......           ++.++|.-.|+.....  .|
T Consensus       289 ~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L--ap  365 (564)
T KOG1174|consen  289 MDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQML--AP  365 (564)
T ss_pred             HHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhc--ch
Confidence            77776542 2244455555555566778888888888766543322222           8999999999988753  54


Q ss_pred             -cHHHHHHHHHHhhcccCccccC
Q 030489          154 -DGLLLSTLADYNLQSSGSQEHC  175 (176)
Q Consensus       154 -~~~~~~~l~~~~~~~g~~~~A~  175 (176)
                       +...|.-|+.+|...|++.||-
T Consensus       366 ~rL~~Y~GL~hsYLA~~~~kEA~  388 (564)
T KOG1174|consen  366 YRLEIYRGLFHSYLAQKRFKEAN  388 (564)
T ss_pred             hhHHHHHHHHHHHHhhchHHHHH
Confidence             4679999999999999998874

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

Probab=97.78  E-value=0.002  Score=47.48  Aligned_cols=116  Identities=16%  Similarity=0.144  Sum_probs=74.1

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      ++.+++.|..+|++.... +|.-...|...+.+=-..|+...|.++|++...-  .|+...|.+.++.=.+..+++.|..
T Consensus       119 knk~vNhARNv~dRAvt~-lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~  195 (677)
T KOG1915|consen  119 KNKQVNHARNVWDRAVTI-LPRVDQLWYKYIYMEEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARS  195 (677)
T ss_pred             hhhhHhHHHHHHHHHHHh-cchHHHHHHHHHHHHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHH
Confidence            455666677777766654 2323445555555556667777777777666553  5677777777777677777777777


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      +++..+-.  .|++.+|-.....=.++|+...+.++|+...
T Consensus       196 IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAi  234 (677)
T KOG1915|consen  196 IYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAI  234 (677)
T ss_pred             HHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            77766653  3566666666666666666666666666543

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

Probab=97.78  E-value=0.0042  Score=49.80  Aligned_cols=63  Identities=17%  Similarity=0.269  Sum_probs=42.7

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   90 (176)
                      +...+..+..+|-+.|+.+++..+|+++.+.. +-|+...|.+.-.|... ++++|.+++.+...
T Consensus       115 ~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~  177 (906)
T PRK14720        115 NKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIY  177 (906)
T ss_pred             hhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHH
Confidence            44566677777777777777777777777766 33666667666666666 77777666665543

>PRK15331 chaperone protein SicA; Provisional

Probab=97.77  E-value=0.00053  Score=43.40  Aligned_cols=88  Identities=11%  Similarity=0.004  Sum_probs=74.1

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +...|++++|..+|.-+.-.++. +..-|..|..++-..+++++|+..|......+. -|+..+...-.++...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHH
Confidence            35689999999999999876543 677788888889999999999999988776553 3666777788999999999999


Q ss_pred             HHHHHHHHhc
Q 030489           82 TMMFSKMLEK   91 (176)
Q Consensus        82 ~~~~~~~~~~   91 (176)
                      ...|+...+.
T Consensus       125 ~~~f~~a~~~  134 (165)
T PRK15331        125 RQCFELVNER  134 (165)
T ss_pred             HHHHHHHHhC
Confidence            9999998874

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.77  E-value=0.0032  Score=41.84  Aligned_cols=37  Identities=24%  Similarity=0.325  Sum_probs=21.2

Q ss_pred             CChHHHHHHHHHHHHCCCCCcHH----HHHHHHHHhhcccCcc
Q 030489          134 GRPTEAMQLYDSMLRNGIMPDGL----LLSTLADYNLQSSGSQ  172 (176)
Q Consensus       134 ~~~~~a~~~~~~m~~~g~~p~~~----~~~~l~~~~~~~g~~~  172 (176)
                      |.+..|..-++.+.+.  -|++.    ....++.++.+.|..+
T Consensus       155 ~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~  195 (203)
T PF13525_consen  155 GKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQ  195 (203)
T ss_dssp             T-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HH
T ss_pred             ccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChH
Confidence            6677777777777654  34433    4456666776666554

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.75  E-value=0.00032  Score=38.25  Aligned_cols=56  Identities=16%  Similarity=0.225  Sum_probs=30.2

Q ss_pred             HHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 030489           36 GYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKG   92 (176)
Q Consensus        36 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   92 (176)
                      .|.+.+++++|+++++.+...+.. +...+.....++.+.|++++|.+.|+...+.+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            455555556666555555554322 44444555555555555665555555555443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.75  E-value=0.0036  Score=43.83  Aligned_cols=160  Identities=12%  Similarity=0.099  Sum_probs=98.5

Q ss_pred             hhhCChhHHHHHHHHHhh----CCCCcc--HHHHHHHHHHHHhC-CChhHHHHHHHHHHh----CCCCc-ChhhHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTD----RGLEPD--IITYNTIICGYCSL-NRLDEAVQLFEKLTC----VQLKP-NSITFTILID   70 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~----~~~~~-~~~~~~~ll~   70 (176)
                      .+..++++|.+++++..+    .| .|+  ...+..+...|... |++++|++.|++...    .+.+- -...+..+..
T Consensus        85 ~k~~~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~  163 (282)
T PF14938_consen   85 YKKGDPDEAIECYEKAIEIYREAG-RFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAAD  163 (282)
T ss_dssp             HHHTTHHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHhhCHHHHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHH
Confidence            345588888888887654    34 333  45777888888888 899999999987653    23111 1344566778


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCC-----CcHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHH
Q 030489           71 AFCKEGRMDDATMMFSKMLEKGPK-----ANVV-TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYD  144 (176)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~  144 (176)
                      .+.+.|++++|.++|++.......     ++.. .|-..+-++...||+..|...+++...............-+..+++
T Consensus       164 l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~  243 (282)
T PF14938_consen  164 LYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLE  243 (282)
T ss_dssp             HHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHH
Confidence            899999999999999998765332     2222 2333445666789999999999998765544444444444555555


Q ss_pred             HHHHCCCCCcHHHHHHHHHHhhc
Q 030489          145 SMLRNGIMPDGLLLSTLADYNLQ  167 (176)
Q Consensus       145 ~m~~~g~~p~~~~~~~l~~~~~~  167 (176)
                      -..+.    |...|...+.-|-+
T Consensus       244 A~~~~----D~e~f~~av~~~d~  262 (282)
T PF14938_consen  244 AYEEG----DVEAFTEAVAEYDS  262 (282)
T ss_dssp             HHHTT-----CCCHHHHCHHHTT
T ss_pred             HHHhC----CHHHHHHHHHHHcc
Confidence            55433    33445444444433

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.73  E-value=0.0019  Score=44.08  Aligned_cols=131  Identities=11%  Similarity=0.137  Sum_probs=97.1

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHH----
Q 030489           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI----  104 (176)
Q Consensus        29 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----  104 (176)
                      +.+.++..+.-.|.+.-....+++..+...+.++.....|.+...+.|+.+.|...|+...+..-..+..+++.++    
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            3456677777788888899999999988777788889999999999999999999999877654445555555544    


Q ss_pred             -HHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHCCCCCcHHHHHHH
Q 030489          105 -DGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRNGIMPDGLLLSTL  161 (176)
Q Consensus       105 -~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~g~~p~~~~~~~l  161 (176)
                       ..|.-.+++..+...+.++...+......           |+...|++.++.|.+.  .|...+-+++
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~  325 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESV  325 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhH
Confidence             34555678888888888776544332222           9999999999999876  4555544433

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.72  E-value=0.011  Score=46.67  Aligned_cols=115  Identities=19%  Similarity=0.360  Sum_probs=83.1

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHH--HhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGY--CSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      ...+++.+|+.....+.+.  .|+. .|..++.++  .+.|+.++|..+++.....+.. |..|...+-.+|...+..++
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--HPNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHH--CCCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            3467888888888877765  2332 334444443  5888889998888777766555 88888888888899999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      |..+|+...+..  |+..-...+..+|.+.+++.+-.+.--+|
T Consensus        96 ~~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~L  136 (932)
T KOG2053|consen   96 AVHLYERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQL  136 (932)
T ss_pred             HHHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999998888763  56777778888888888776544444333

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.72  E-value=0.0062  Score=41.67  Aligned_cols=145  Identities=14%  Similarity=0.144  Sum_probs=86.0

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhH---HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITF---TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~---~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      ...+-.....+.+.|++++|++.|+.+......+ ...-   -.+..++.+.++++.|...+++..+..+......|...
T Consensus        32 ~~~~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         32 PSEIYATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            3333344444567788888888888877653222 2222   34456677888888888888888776555444455555


Q ss_pred             HHHHHh--c---------------CC---HHHHHHHHHHHHHCCCCCCCC------------------------------
Q 030489          104 IDGYFK--S---------------QN---MKSAFDVYEEMCENNISPNIA------------------------------  133 (176)
Q Consensus       104 ~~~~~~--~---------------g~---~~~a~~~~~~m~~~~~~~~~~------------------------------  133 (176)
                      +.+.+.  .               .|   ..+|+..|+++.+.  -|++.                              
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            554431  1               12   23455666666553  23333                              


Q ss_pred             CChHHHHHHHHHHHHC--CCCCcHHHHHHHHHHhhcccCcccc
Q 030489          134 GRPTEAMQLYDSMLRN--GIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ~~~~~a~~~~~~m~~~--g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      |.+.-|..-++.+.+.  +..........+..+|...|..++|
T Consensus       189 ~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a  231 (243)
T PRK10866        189 GAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQA  231 (243)
T ss_pred             CchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHH
Confidence            7777788888777743  1222344556777888887777665

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

Probab=97.71  E-value=0.0047  Score=44.87  Aligned_cols=53  Identities=17%  Similarity=0.205  Sum_probs=43.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           70 DAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      ..+...+++++|.-.|+..+..-+ -+...|.-|+..|...|.+.+|.-+-+..
T Consensus       342 ~lL~~~~R~~~A~IaFR~Aq~Lap-~rL~~Y~GL~hsYLA~~~~kEA~~~An~~  394 (564)
T KOG1174|consen  342 RLLIALERHTQAVIAFRTAQMLAP-YRLEIYRGLFHSYLAQKRFKEANALANWT  394 (564)
T ss_pred             HHHHhccchHHHHHHHHHHHhcch-hhHHHHHHHHHHHHhhchHHHHHHHHHHH
Confidence            456778899999999998887643 48899999999999999998887766543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.68  E-value=0.0052  Score=42.51  Aligned_cols=124  Identities=11%  Similarity=0.066  Sum_probs=88.9

Q ss_pred             CccHHHHHHHHHHHHhC-----CChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC----------------CHHHHH
Q 030489           24 EPDIITYNTIICGYCSL-----NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG----------------RMDDAT   82 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----------------~~~~a~   82 (176)
                      ..|..+|-..+..+...     +..+-.-..++.|.+.|+.-|..+|+.|++.+-+-.                +-+.++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            45778888888777543     567777778899999999999999999999875533                346689


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH-HHHHHHHHHHH-CCCCCCCC-----CC-hHHHHHHHHHHH
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK-SAFDVYEEMCE-NNISPNIA-----GR-PTEAMQLYDSML  147 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~-~a~~~~~~m~~-~~~~~~~~-----~~-~~~a~~~~~~m~  147 (176)
                      +++++|...|+-||..+-..|+.++++.+-.- +..++.--|.+ .+..|...     ++ .+.|.--++.|.
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPkfkn~np~p~pr~vp~dp~ElA~~aL~~M~  216 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPKFKNSNPYPDPRHVPGDPSELAGIALKMMS  216 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhhhhccCCCCCCCCCCCCCHHHHHHHHHHHhC
Confidence            99999999999999999999999999988643 33333333432 22233222     33 445555555554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.66  E-value=0.0072  Score=41.05  Aligned_cols=122  Identities=15%  Similarity=0.223  Sum_probs=96.8

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      -.|++++|.++++.+.+.+ |.|..++-.=+-..-..|+.-+|++-+...... +..|...|.-+...|...|++++|.-
T Consensus        98 a~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~f  175 (289)
T KOG3060|consen   98 ATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAF  175 (289)
T ss_pred             HhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHH
Confidence            3588999999999999886 557777777777777788888999888887765 56799999999999999999999999


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHCCC
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKS---QNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~m~~~~~  128 (176)
                      -++++.-..+ .+...+..+.+.+.-.   .+.+.+.+.|.+..+...
T Consensus       176 ClEE~ll~~P-~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  176 CLEELLLIQP-FNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             HHHHHHHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            9999987643 3666666666655443   467788888888776543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.65  E-value=0.0074  Score=43.12  Aligned_cols=160  Identities=13%  Similarity=0.153  Sum_probs=104.8

Q ss_pred             CChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHH-HHHHHHhcCCHHHHHHH
Q 030489            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI-LIDAFCKEGRMDDATMM   84 (176)
Q Consensus         6 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-ll~~~~~~~~~~~a~~~   84 (176)
                      -++++.+..++.+..- +.-|...--.+..+++-.|.+.+|+++|-+.....++ |..+|.+ |.++|.+++.++-|+.+
T Consensus       373 ~qFddVl~YlnSi~sY-F~NdD~Fn~N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~  450 (557)
T KOG3785|consen  373 FQFDDVLTYLNSIESY-FTNDDDFNLNLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDM  450 (557)
T ss_pred             HHHHHHHHHHHHHHHH-hcCcchhhhHHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHH
Confidence            3566666666666554 2212222236778888899999999999776655555 5566655 45788999999988877


Q ss_pred             HHHHHhcCCCCcHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-CChHHHHHHHHHHHHCCCCCc-HHHHHHH
Q 030489           85 FSKMLEKGPKANVVT-YSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-GRPTEAMQLYDSMLRNGIMPD-GLLLSTL  161 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~~a~~~~~~m~~~g~~p~-~~~~~~l  161 (176)
                      +-.+.   .+.+..+ ...+..-|.+.+++--|-+.|+.+...+..|..- |+--.+-.+|+.+....-.|- ..+...+
T Consensus       451 ~lk~~---t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~pEnWeGKRGACaG~f~~l~~~~~~~~p~~~~rEV  527 (557)
T KOG3785|consen  451 MLKTN---TPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTPENWEGKRGACAGLFRQLANHKTDPIPISQMREV  527 (557)
T ss_pred             HHhcC---CchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCccccCCccchHHHHHHHHHcCCCCCCchhHHHHH
Confidence            65543   2223333 4445577888899998889998887766555544 777778888888874433332 3455666


Q ss_pred             HHHhhcccC
Q 030489          162 ADYNLQSSG  170 (176)
Q Consensus       162 ~~~~~~~g~  170 (176)
                      +..+...++
T Consensus       528 vhllr~~~n  536 (557)
T KOG3785|consen  528 VHLLRMKPN  536 (557)
T ss_pred             HHHHHhCCC
Confidence            665555544

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

Probab=97.63  E-value=0.00099  Score=51.17  Aligned_cols=120  Identities=13%  Similarity=0.175  Sum_probs=103.5

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc-ChhhHHHHHHHHHhcCCHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP-NSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      .+.++++++.+.|+.-.+.+ +.-..+|..+-.+..+.+++..|.+.|..-..-  .| +...||.+-.+|.+.+.-.+|
T Consensus       496 ~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra  572 (777)
T KOG1128|consen  496 LSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRA  572 (777)
T ss_pred             ccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHH
Confidence            34688999999998887764 447899999999999999999999999887754  44 457899999999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      ...+.+..+.+.. +...|-..+-...+.|.+++|++.+.++...
T Consensus       573 ~~~l~EAlKcn~~-~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  573 FRKLKEALKCNYQ-HWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             HHHHHHHhhcCCC-CCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            9999999988854 7778888888889999999999999988653

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

Probab=97.61  E-value=0.0075  Score=45.57  Aligned_cols=143  Identities=17%  Similarity=0.232  Sum_probs=83.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.++|++|+.+.+.-..  ...+..-+.-=..+..+.++.++|+..++-..    +.|..+...-...+.+.|++++|
T Consensus        56 lIq~~ky~~ALk~ikk~~~--~~~~~~~~fEKAYc~Yrlnk~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydea  129 (652)
T KOG2376|consen   56 LIQLDKYEDALKLIKKNGA--LLVINSFFFEKAYCEYRLNKLDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEA  129 (652)
T ss_pred             hhhhhHHHHHHHHHHhcch--hhhcchhhHHHHHHHHHcccHHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHH
Confidence            4567778888754433111  11111111122333447888888888887222    12333555555667888888888


Q ss_pred             HHHHHHHHhcCC---------------------------CCcHHHHHHHH---HHHHhcCCHHHHHHHHHHHHHC-----
Q 030489           82 TMMFSKMLEKGP---------------------------KANVVTYSCLI---DGYFKSQNMKSAFDVYEEMCEN-----  126 (176)
Q Consensus        82 ~~~~~~~~~~~~---------------------------~~~~~~~~~l~---~~~~~~g~~~~a~~~~~~m~~~-----  126 (176)
                      ..+|+.+.+.+.                           .....+|..+.   ..++..|+|.+|+++++.....     
T Consensus       130 ldiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l  209 (652)
T KOG2376|consen  130 LDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKL  209 (652)
T ss_pred             HHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhh
Confidence            888888854321                           11123454443   3456789999999999887221     


Q ss_pred             ---CCCCCCC------------------CChHHHHHHHHHHHHCC
Q 030489          127 ---NISPNIA------------------GRPTEAMQLYDSMLRNG  150 (176)
Q Consensus       127 ---~~~~~~~------------------~~~~~a~~~~~~m~~~g  150 (176)
                         .......                  |+.++|.+++....+..
T Consensus       210 ~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~  254 (652)
T KOG2376|consen  210 EDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRN  254 (652)
T ss_pred             cccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc
Confidence               1110000                  99999999999888664

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

Probab=97.59  E-value=0.013  Score=44.91  Aligned_cols=92  Identities=13%  Similarity=0.169  Sum_probs=53.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCcc---HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc-----------------C
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPD---IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP-----------------N   61 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-----------------~   61 (176)
                      |-+.|+++.|..+|++..+-..+--   ..+|..-..+=.+..+++.|+++.+......-.|                 +
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            3457788888888888776643322   3455555555566677777777776654321110                 2


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 030489           62 SITFTILIDAFCKEGRMDDATMMFSKMLEKGP   93 (176)
Q Consensus        62 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~   93 (176)
                      ...|...++.--..|-++....+++.+.+..+
T Consensus       477 lkiWs~y~DleEs~gtfestk~vYdriidLri  508 (835)
T KOG2047|consen  477 LKIWSMYADLEESLGTFESTKAVYDRIIDLRI  508 (835)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhc
Confidence            22334444444455667777777777766544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.58  E-value=0.00076  Score=36.73  Aligned_cols=53  Identities=15%  Similarity=0.179  Sum_probs=27.4

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV   56 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   56 (176)
                      .+.+++++|+++++.+...+ |.+...|.....++.+.|++++|.+.++...+.
T Consensus         6 ~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    6 LQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            34555555555555555543 224455555555555555555555555555543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=97.50  E-value=0.011  Score=46.07  Aligned_cols=121  Identities=16%  Similarity=0.082  Sum_probs=97.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.++.++|..++.+..+. .+.....|......+...|.+++|.+.|......+.. ++...+++...+.+.|+..-|
T Consensus       660 ~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~-hv~s~~Ala~~lle~G~~~la  737 (799)
T KOG4162|consen  660 FLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPD-HVPSMTALAELLLELGSPRLA  737 (799)
T ss_pred             HHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHhCCcchH
Confidence            34567777888787777665 2446778888888888999999999999887765322 456678888899999988888


Q ss_pred             HH--HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           82 TM--MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        82 ~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      ..  ++.++.+.++. +...|..+-..+-+.|+.+.|-+.|....+
T Consensus       738 ~~~~~L~dalr~dp~-n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~q  782 (799)
T KOG4162|consen  738 EKRSLLSDALRLDPL-NHEAWYYLGEVFKKLGDSKQAAECFQAALQ  782 (799)
T ss_pred             HHHHHHHHHHhhCCC-CHHHHHHHHHHHHHccchHHHHHHHHHHHh
Confidence            77  99999998765 899999999999999999999999987654

>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=97.48  E-value=0.00055  Score=37.87  Aligned_cols=60  Identities=22%  Similarity=0.429  Sum_probs=29.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCC-Cc-HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           64 TFTILIDAFCKEGRMDDATMMFSKMLEK----GPK-AN-VVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        64 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      +++.+...|...|++++|++.|++..+.    |.. |. ..+++.+..+|...|++++|++.+++.
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            3444555555555555555555544421    111 11 334555555666666666666665543

...

>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=97.48  E-value=0.00048  Score=38.10  Aligned_cols=65  Identities=26%  Similarity=0.417  Sum_probs=51.4

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CC-CcC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QL-KPN-SITFTILIDAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~-~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   90 (176)
                      ...+++.+...|...|++++|+..|++....    |- .|+ ..+++.+..++...|++++|.+.+++..+
T Consensus         4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    4 TANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3567899999999999999999999887643    21 122 56678888999999999999999988653

...

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.47  E-value=0.0013  Score=52.37  Aligned_cols=137  Identities=15%  Similarity=0.157  Sum_probs=87.7

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-CcChhhHHHHHHHHHhcCCHHHHHHHH
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-KPNSITFTILIDAFCKEGRMDDATMMF   85 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~   85 (176)
                      +...|..+|....+-. ..+...+..+.+.|++..+++.|..+.-..-+... ..-..-|.-.--.|.+.++..+|..-|
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            3445666666665543 33556666777777777777777666322221100 000111222223355666777777777


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHH
Q 030489           86 SKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSML  147 (176)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~  147 (176)
                      +...+..+. |...|..+.++|.+.|.+..|.++|.+....  .|...             |.+++++..+..+.
T Consensus       586 QsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~y~~fk~A~~ecd~GkYkeald~l~~ii  657 (1238)
T KOG1127|consen  586 QSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSKYGRFKEAVMECDNGKYKEALDALGLII  657 (1238)
T ss_pred             HHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            777766655 8899999999999999999999999887654  34443             88888888887776

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.46  E-value=0.013  Score=41.06  Aligned_cols=85  Identities=18%  Similarity=0.278  Sum_probs=62.0

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHH-HHHHHhcCCHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTIL-IDAFCKEGRMDDA   81 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-l~~~~~~~~~~~a   81 (176)
                      .+..++++|.+++..--++. +.+......|..+|....++..|-..|+++-..  .|-..-|..- ...+.+.+.+..|
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            56778899999988777764 337888889999999999999999999998765  4444444321 3445566677777


Q ss_pred             HHHHHHHHh
Q 030489           82 TMMFSKMLE   90 (176)
Q Consensus        82 ~~~~~~~~~   90 (176)
                      ..+...|.+
T Consensus        98 LrV~~~~~D  106 (459)
T KOG4340|consen   98 LRVAFLLLD  106 (459)
T ss_pred             HHHHHHhcC
Confidence            777766654

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.44  E-value=0.039  Score=43.88  Aligned_cols=84  Identities=26%  Similarity=0.279  Sum_probs=66.0

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.|.|+.++|..+++.....+.. |..|...+-.+|.+.++.++|..+|+...+.  .|+......+..+|.+.+.+.+-
T Consensus        53 l~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~q  129 (932)
T KOG2053|consen   53 LFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQ  129 (932)
T ss_pred             HHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHH
Confidence            35789999999888887766544 8889999999999999999999999988765  56777778888888888877664


Q ss_pred             HHHHHHH
Q 030489           82 TMMFSKM   88 (176)
Q Consensus        82 ~~~~~~~   88 (176)
                      .+.--+|
T Consensus       130 Qkaa~~L  136 (932)
T KOG2053|consen  130 QKAALQL  136 (932)
T ss_pred             HHHHHHH
Confidence            4443333

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.44  E-value=0.00088  Score=46.15  Aligned_cols=84  Identities=17%  Similarity=0.262  Sum_probs=66.6

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCCh----------------hHHHHHHHHHHhCCCCcChhhHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRL----------------DEAVQLFEKLTCVQLKPNSITFTIL   68 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~----------------~~a~~~~~~m~~~~~~~~~~~~~~l   68 (176)
                      .++++-....++.|.+.|+..|..+|+.|++.+=+..-.                +=+++++++|...|+.||..+-..|
T Consensus        85 R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~l  164 (406)
T KOG3941|consen   85 RTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDIL  164 (406)
T ss_pred             cchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHH
Confidence            456677777888999999999999999999988654432                2478999999999999999999999


Q ss_pred             HHHHHhcCCH-HHHHHHHHHH
Q 030489           69 IDAFCKEGRM-DDATMMFSKM   88 (176)
Q Consensus        69 l~~~~~~~~~-~~a~~~~~~~   88 (176)
                      ++++++.+-. .+...+.-.|
T Consensus       165 vn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  165 VNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HHHhccccccHHHHHHHHHhh
Confidence            9999998864 3333433333

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.41  E-value=0.011  Score=36.72  Aligned_cols=120  Identities=14%  Similarity=0.224  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC--CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHH
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL--KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (176)
                      ...|.. .....+.|++++|++.|+.+..+-.  +-....--.|+.+|.+.+++++|...+++.++..+......|-..+
T Consensus        11 ~~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   11 QELYQE-AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYM   89 (142)
T ss_pred             HHHHHH-HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            344444 4445589999999999999987621  1234555678889999999999999999999988776667788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHHHHHHCCCCCcH
Q 030489          105 DGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDG  155 (176)
Q Consensus       105 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~  155 (176)
                      .+++.....+   ..+..+....   ...+....|..-|+++++.  -|++
T Consensus        90 ~gL~~~~~~~---~~~~~~~~~d---rD~~~~~~A~~~f~~lv~~--yP~S  132 (142)
T PF13512_consen   90 RGLSYYEQDE---GSLQSFFRSD---RDPTPARQAFRDFEQLVRR--YPNS  132 (142)
T ss_pred             HHHHHHHHhh---hHHhhhcccc---cCcHHHHHHHHHHHHHHHH--CcCC
Confidence            8877554433   2333332111   1115567788888888764  5554

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.36  E-value=0.0062  Score=41.73  Aligned_cols=128  Identities=13%  Similarity=0.128  Sum_probs=98.8

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHH-----HHHHhcCCHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILI-----DAFCKEGRMD   79 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll-----~~~~~~~~~~   79 (176)
                      .|.+.-...+++..++...+.++.....|++.-.+.|+.+.|...|++..+..-..|.-+++.++     ..|.-.+++.
T Consensus       190 ~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a  269 (366)
T KOG2796|consen  190 MKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFA  269 (366)
T ss_pred             chhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchH
Confidence            34566677888888887767788999999999999999999999999888765556666666554     3455677888


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC
Q 030489           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA  133 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  133 (176)
                      .|...+.+....+.. ++...|.=.-+..-.|+...|++.++.|.+....+...
T Consensus       270 ~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~l~  322 (366)
T KOG2796|consen  270 EAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHYLH  322 (366)
T ss_pred             HHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccchh
Confidence            888889888877654 66666666666667899999999999998765544443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.35  E-value=0.027  Score=40.14  Aligned_cols=85  Identities=16%  Similarity=0.237  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (176)
                      .+.+.-+.-+...|....|.++-.+..    .|+..-|..-+.+++..++|++-.++-..      .-++..|-.++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHH
Confidence            344555556666777666666654442    45777777777777777777665554321      12446677777777


Q ss_pred             HhcCCHHHHHHHHHH
Q 030489          108 FKSQNMKSAFDVYEE  122 (176)
Q Consensus       108 ~~~g~~~~a~~~~~~  122 (176)
                      .+.|+..+|..+...
T Consensus       248 ~~~~~~~eA~~yI~k  262 (319)
T PF04840_consen  248 LKYGNKKEASKYIPK  262 (319)
T ss_pred             HHCCCHHHHHHHHHh
Confidence            777777777766665

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

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.35  E-value=0.028  Score=40.18  Aligned_cols=122  Identities=11%  Similarity=0.064  Sum_probs=85.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCc------------cHHH--HHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEP------------DIIT--YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI   67 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~------------~~~~--~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   67 (176)
                      +.+.|++++|..=|+...++...-            ....  ....+..+.-.|+...|+.....+.+.. +.|...+..
T Consensus       116 llK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~  194 (504)
T KOG0624|consen  116 LLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQA  194 (504)
T ss_pred             hhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHH
Confidence            467899999999999988774321            1111  2234555667888889999888888753 457777777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        68 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      -..+|...|++..|+.=+....+.... ++.++-.+-..+...|+.+.++...++..+
T Consensus       195 Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLK  251 (504)
T KOG0624|consen  195 RAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLK  251 (504)
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHc
Confidence            788899999999988877777766544 555665666666666766666666666544

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.35  E-value=0.013  Score=43.30  Aligned_cols=66  Identities=14%  Similarity=0.074  Sum_probs=57.6

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcCh----hhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS----ITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   91 (176)
                      +.+...|+.+..+|.+.|++++|+..|++..+.  .|+.    .+|..+..+|.+.|+.++|.+.+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            346788999999999999999999999998876  4553    35889999999999999999999999875

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.34  E-value=0.025  Score=43.11  Aligned_cols=134  Identities=14%  Similarity=0.080  Sum_probs=88.1

Q ss_pred             CCCccHHHHHHHHHHHHhCCC-----hhHHHHHHHHHHhCCCCcCh-hhHHHHHHHHHhc--------CCHHHHHHHHHH
Q 030489           22 GLEPDIITYNTIICGYCSLNR-----LDEAVQLFEKLTCVQLKPNS-ITFTILIDAFCKE--------GRMDDATMMFSK   87 (176)
Q Consensus        22 ~~~~~~~~~~~ll~~~~~~~~-----~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~--------~~~~~a~~~~~~   87 (176)
                      ..+.+...|...+++.....+     ..+|..+|++..+.  .|+- ..+..+..++...        .+...+.+..+.
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            456688999999998654332     67999999998886  4543 3444433333221        123344444444


Q ss_pred             HHhc-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC----------CChHHHHHHHHHHHHCCCCCcHH
Q 030489           88 MLEK-GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA----------GRPTEAMQLYDSMLRNGIMPDGL  156 (176)
Q Consensus        88 ~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----------~~~~~a~~~~~~m~~~g~~p~~~  156 (176)
                      .... ..+.+...|..+.-.....|++++|...+++....+......          |+.++|.+.+++....  .|...
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~p  487 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGEN  487 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCc
Confidence            3332 133355778877777777899999999999998876421111          9999999999999864  56655


Q ss_pred             HHH
Q 030489          157 LLS  159 (176)
Q Consensus       157 ~~~  159 (176)
                      ||.
T Consensus       488 t~~  490 (517)
T PRK10153        488 TLY  490 (517)
T ss_pred             hHH
Confidence            554

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.31  E-value=0.018  Score=43.01  Aligned_cols=93  Identities=17%  Similarity=0.206  Sum_probs=59.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CC
Q 030489           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GR  135 (176)
Q Consensus        69 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~  135 (176)
                      .+.+.+.|++..|...|.+++...+. |...|....-+|.+.|.+..|++=.+...+.  .|+..             .+
T Consensus       365 Gne~Fk~gdy~~Av~~YteAIkr~P~-Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al~~mk~  441 (539)
T KOG0548|consen  365 GNEAFKKGDYPEAVKHYTEAIKRDPE-DARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAALRAMKE  441 (539)
T ss_pred             HHHHHhccCHHHHHHHHHHHHhcCCc-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHHHHHHH
Confidence            44566777778888888777777644 7777777777788888777777766555544  22222             66


Q ss_pred             hHHHHHHHHHHHHCCCCCcHHHHHHHHHHhh
Q 030489          136 PTEAMQLYDSMLRNGIMPDGLLLSTLADYNL  166 (176)
Q Consensus       136 ~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~  166 (176)
                      ++.|++.|++-.+.  .|+..-+..-+.-|.
T Consensus       442 ydkAleay~eale~--dp~~~e~~~~~~rc~  470 (539)
T KOG0548|consen  442 YDKALEAYQEALEL--DPSNAEAIDGYRRCV  470 (539)
T ss_pred             HHHHHHHHHHHHhc--CchhHHHHHHHHHHH
Confidence            77777777776654  355554444443333

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.30  E-value=0.038  Score=45.03  Aligned_cols=145  Identities=10%  Similarity=-0.001  Sum_probs=96.4

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCcc----HHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCC-cChhhHHHHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPD----IITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLK-PNSITFTILIDAFC   73 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~ll~~~~   73 (176)
                      ...|++++|...+++....-...+    ....+.+...+...|++++|...+.+....    |.. +...+...+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            457899999999988765311112    234556667778899999999999887642    111 11234455667788


Q ss_pred             hcCCHHHHHHHHHHHHhc----CCC--C-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCCCC-----------
Q 030489           74 KEGRMDDATMMFSKMLEK----GPK--A-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI--SPNIA-----------  133 (176)
Q Consensus        74 ~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~-----------  133 (176)
                      ..|++++|...+++....    +..  + ....+..+...+...|++++|...+.+......  .+...           
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            899999999998876542    211  1 223345556677778999999999987654211  11111           


Q ss_pred             ---CChHHHHHHHHHHH
Q 030489          134 ---GRPTEAMQLYDSML  147 (176)
Q Consensus       134 ---~~~~~a~~~~~~m~  147 (176)
                         |+.+.|.+.+++..
T Consensus       623 ~~~G~~~~A~~~l~~a~  639 (903)
T PRK04841        623 LARGDLDNARRYLNRLE  639 (903)
T ss_pred             HHcCCHHHHHHHHHHHH
Confidence               89999998888775

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.28  E-value=0.046  Score=41.27  Aligned_cols=139  Identities=13%  Similarity=0.115  Sum_probs=90.3

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc-ChhhHHHHHHHHHhcCCHHHHHHHH
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP-NSITFTILIDAFCKEGRMDDATMMF   85 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~   85 (176)
                      +.+...+.++++...-..--.-+|...|+.-.+..-...|..+|.+..+.+..+ ++...+++|..|+ .++.+-|.++|
T Consensus       346 ~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIF  424 (656)
T KOG1914|consen  346 KEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIF  424 (656)
T ss_pred             hhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHH
Confidence            345555566665543222234567777777777777888888888888777666 6666777777665 45667778888


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC--------------CChHHHHHHHHHHH
Q 030489           86 SKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA--------------GRPTEAMQLYDSML  147 (176)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--------------~~~~~a~~~~~~m~  147 (176)
                      +--.+.- .-+..--...++-+...++-..+..+|++....++.++..              |+...++++-+++.
T Consensus       425 eLGLkkf-~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~  499 (656)
T KOG1914|consen  425 ELGLKKF-GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRF  499 (656)
T ss_pred             HHHHHhc-CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            7544431 2133334556777777788888888888887765555544              66666666665554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.26  E-value=0.029  Score=45.69  Aligned_cols=123  Identities=16%  Similarity=0.114  Sum_probs=81.1

Q ss_pred             hhhCChhHHHHHHHHHhhC----CC-CccHHHHHHHHHHHHhCCChhHHHHHHHHHHh----CCCC--c-ChhhHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDR----GL-EPDIITYNTIICGYCSLNRLDEAVQLFEKLTC----VQLK--P-NSITFTILID   70 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~~~~--~-~~~~~~~ll~   70 (176)
                      ...|++++|...+.+....    |. .+...++..+...+...|++++|...+.+...    .+..  + ....+..+..
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            4578999999988877643    21 11224556667778889999999998877554    2221  1 1223444556


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc----CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           71 AFCKEGRMDDATMMFSKMLEK----GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      .+...|++++|...+++....    +.......+..+...+...|+++.|...+.+...
T Consensus       582 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~  640 (903)
T PRK04841        582 LLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLEN  640 (903)
T ss_pred             HHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            677789999999888876542    2111234455566677888999999988887743

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.23  E-value=0.028  Score=40.68  Aligned_cols=122  Identities=20%  Similarity=0.195  Sum_probs=90.0

Q ss_pred             chhhCChhHHHHHHHHHhhC-----CCCc---------cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR-----GLEP---------DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI   67 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~-----~~~~---------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   67 (176)
                      |.+.|++..|...|++....     +.++         -..++..+.-++.+.+++..|++..+.....+ ++|+-....
T Consensus       218 ~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyR  296 (397)
T KOG0543|consen  218 LFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYR  296 (397)
T ss_pred             HHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHH
Confidence            56788999999988875533     1121         23456778888899999999999999888775 347777777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH-HHHHHHHHHHH
Q 030489           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK-SAFDVYEEMCE  125 (176)
Q Consensus        68 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~-~a~~~~~~m~~  125 (176)
                      =-.++...|+++.|+..|+.+.+..+. |..+-+-|+.+-.+...+. ...++|..|..
T Consensus       297 rG~A~l~~~e~~~A~~df~ka~k~~P~-Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  297 RGQALLALGEYDLARDDFQKALKLEPS-NKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            788899999999999999999987544 5556666666666655544 44778888854

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=97.22  E-value=0.018  Score=40.08  Aligned_cols=62  Identities=21%  Similarity=0.381  Sum_probs=55.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        63 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      .++..++..+...|+.+.+...++++....+- +...|..+|.+|.+.|+...|+..|+++.+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            34566788888999999999999999998754 999999999999999999999999999865

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.21  E-value=0.015  Score=42.92  Aligned_cols=65  Identities=20%  Similarity=0.132  Sum_probs=56.9

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANV---VTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        61 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +...++.+..+|.+.|++++|...|++..+.++. +.   .+|..+..+|...|+.++|+..+++..+.
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            5677889999999999999999999999887654 33   46999999999999999999999998774

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

Probab=97.18  E-value=0.019  Score=43.93  Aligned_cols=155  Identities=13%  Similarity=0.116  Sum_probs=117.7

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      ...+++...+++.+.+.+. .+--..|.....-.+...|+.++|......-.+..+. +.+-|+.+.-.+....++++|+
T Consensus        18 yE~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eai   95 (700)
T KOG1156|consen   18 YETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAI   95 (700)
T ss_pred             HHHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHH
Confidence            3457778888888888773 3445566666666677889999999888777665444 7777888888888889999999


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHC
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~  149 (176)
                      +.|......+.. |...|.-+--.-++.|+++.......+..+.  .|...             |+...|..+.+...+.
T Consensus        96 Kcy~nAl~~~~d-N~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t  172 (700)
T KOG1156|consen   96 KCYRNALKIEKD-NLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEILEEFEKT  172 (700)
T ss_pred             HHHHHHHhcCCC-cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999888755 8888888888888889999888888877664  23332             9999999999999854


Q ss_pred             C-CCCcHHHHHHHH
Q 030489          150 G-IMPDGLLLSTLA  162 (176)
Q Consensus       150 g-~~p~~~~~~~l~  162 (176)
                      . -.|+...|.-..
T Consensus       173 ~~~~~s~~~~e~se  186 (700)
T KOG1156|consen  173 QNTSPSKEDYEHSE  186 (700)
T ss_pred             hccCCCHHHHHHHH
Confidence            3 357777665443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.08  E-value=0.04  Score=36.63  Aligned_cols=124  Identities=16%  Similarity=0.264  Sum_probs=78.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCC--CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHH--HHH----
Q 030489            2 LIKECHLDAALKLFGQLTDRGL--EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILID--AFC----   73 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~--~~~----   73 (176)
                      +.+.|++++|.+.|+.+...-+  +-.....-.+..++.+.|+++.|...+++..+.-..-....+...+.  ++.    
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            3568999999999999987632  22456677889999999999999999999876522211111222222  211    


Q ss_pred             -------hcCCHHHHHHHHHHHHhcCCCCcHHHH-----------------HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           74 -------KEGRMDDATMMFSKMLEKGPKANVVTY-----------------SCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        74 -------~~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                             ..+...+|...|+.+++.-+. +..+-                 -.+...|.+.|.+..|..-++.+.+.
T Consensus        95 ~~~~~~~D~~~~~~A~~~~~~li~~yP~-S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~  170 (203)
T PF13525_consen   95 GILRSDRDQTSTRKAIEEFEELIKRYPN-SEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIEN  170 (203)
T ss_dssp             HHH-TT---HHHHHHHHHHHHHHHH-TT-STTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHH
T ss_pred             cchhcccChHHHHHHHHHHHHHHHHCcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence                   122345788888888866322 21111                 12456788899999999999998874

>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=97.07  E-value=0.026  Score=34.47  Aligned_cols=65  Identities=9%  Similarity=0.132  Sum_probs=55.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHh---------------cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           61 NSITFTILIDAFCKEGRMDDATMMFSKMLE---------------KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        61 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---------------~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      |..++..+|-++++.|+.+....+.+..-.               ....|+..+..+++.+|+..|++..|+++.+...+
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            567899999999999999999999876532               22468899999999999999999999999998754

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.97  E-value=0.034  Score=34.10  Aligned_cols=91  Identities=21%  Similarity=0.173  Sum_probs=64.1

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHH---HHHHhcCCH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILI---DAFCKEGRM   78 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll---~~~~~~~~~   78 (176)
                      +...|+++.|++.|.+...-- +-....||.-..++.-.|+.++|++=+++..+-.-..+...+.+.+   ..|...|+-
T Consensus        53 laE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~d  131 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGND  131 (175)
T ss_pred             HHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCch
Confidence            456788888888888877653 4477888888888888888888888887776542222433333333   456777888


Q ss_pred             HHHHHHHHHHHhcCC
Q 030489           79 DDATMMFSKMLEKGP   93 (176)
Q Consensus        79 ~~a~~~~~~~~~~~~   93 (176)
                      +.|..=|+...+.|.
T Consensus       132 d~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  132 DAARADFEAAAQLGS  146 (175)
T ss_pred             HHHHHhHHHHHHhCC
Confidence            888888887777664

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.94  E-value=0.0061  Score=29.63  Aligned_cols=39  Identities=21%  Similarity=0.412  Sum_probs=21.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 030489           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        64 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      ++..+...|...|++++|.++|++..+..+. |...|..+
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~-~~~a~~~L   41 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPD-DPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-CHHHHHHh
Confidence            3445555666666666666666666655433 44444433

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.91  E-value=0.041  Score=34.09  Aligned_cols=124  Identities=15%  Similarity=0.101  Sum_probs=69.8

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 030489           30 YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK  109 (176)
Q Consensus        30 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  109 (176)
                      ...++..+.+.+.......+++.+...+. .+...++.++..|++.+. .+..+.+..   .   .+......++..|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~---~---~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN---K---SNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh---c---cccCCHHHHHHHHHH
Confidence            34566667777788888888888777763 577778888888876543 333444442   1   122333345555555


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCC----CCCChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhc
Q 030489          110 SQNMKSAFDVYEEMCENNISPN----IAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQ  167 (176)
Q Consensus       110 ~g~~~~a~~~~~~m~~~~~~~~----~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~  167 (176)
                      .+.++++.-++.++........    ..++.+.|.+++.+-      -++..|..++..+..
T Consensus        82 ~~l~~~~~~l~~k~~~~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l~  137 (140)
T smart00299       82 AKLYEEAVELYKKDGNFKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALLD  137 (140)
T ss_pred             cCcHHHHHHHHHhhcCHHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHHc
Confidence            5555555555554421100000    004566666666541      255677777766654

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.90  E-value=0.07  Score=36.59  Aligned_cols=145  Identities=13%  Similarity=0.139  Sum_probs=90.0

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHH---HHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh--c--
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIIT---YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK--E--   75 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~--~--   75 (176)
                      .+.|++++|.+.|+.+...-+.+ ...   .-.+..++.+.+++++|+..+++..+....-...-+...+.+.+.  .  
T Consensus        43 ~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~  121 (243)
T PRK10866         43 LQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDD  121 (243)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcch
Confidence            46799999999999998874332 222   245678889999999999999999876433222233333333221  1  


Q ss_pred             -------------CC---HHHHHHHHHHHHhcCCCCcHH-----H------------HHHHHHHHHhcCCHHHHHHHHHH
Q 030489           76 -------------GR---MDDATMMFSKMLEKGPKANVV-----T------------YSCLIDGYFKSQNMKSAFDVYEE  122 (176)
Q Consensus        76 -------------~~---~~~a~~~~~~~~~~~~~~~~~-----~------------~~~l~~~~~~~g~~~~a~~~~~~  122 (176)
                                   .+   ...|.+.|+++++.-+. +..     .            --.+...|.+.|.+..|..-++.
T Consensus       122 ~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~-S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~  200 (243)
T PRK10866        122 SALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPN-SQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQ  200 (243)
T ss_pred             hhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHH
Confidence                         12   34577788888765321 111     0            01244568889999999999999


Q ss_pred             HHHCCCCCCCCCChHHHHHHHHHHH-HCCCC
Q 030489          123 MCENNISPNIAGRPTEAMQLYDSML-RNGIM  152 (176)
Q Consensus       123 m~~~~~~~~~~~~~~~a~~~~~~m~-~~g~~  152 (176)
                      +.+.   .......++|+.++.+.- ..|..
T Consensus       201 v~~~---Yp~t~~~~eal~~l~~ay~~lg~~  228 (243)
T PRK10866        201 MLRD---YPDTQATRDALPLMENAYRQLQLN  228 (243)
T ss_pred             HHHH---CCCCchHHHHHHHHHHHHHHcCCh
Confidence            9873   222233456666555544 44443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.87  E-value=0.024  Score=40.65  Aligned_cols=128  Identities=12%  Similarity=0.196  Sum_probs=87.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHH-HHHHHHHhCCChhHHHHHHHHHHhCCCCcChhh-HHHHHHHHHhcCCHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYN-TIICGYCSLNRLDEAVQLFEKLTCVQLKPNSIT-FTILIDAFCKEGRMD   79 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~ll~~~~~~~~~~   79 (176)
                      ++--|.+.+|+++|-++..-.++ |..+|. .|.++|.+.++++-|.+++-.+..   +.+..+ ...+.+-|.+.+++-
T Consensus       403 k~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFy  478 (557)
T KOG3785|consen  403 KLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFY  478 (557)
T ss_pred             HHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHH
Confidence            45568999999999776644434 667776 556778899999999888766543   223222 334457789999999


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHH
Q 030489           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYD  144 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~  144 (176)
                      -|-+.|+.+...++  ++.-|         .|+-..+..+|..+....-.|...+.+.++..+++
T Consensus       479 yaaKAFd~lE~lDP--~pEnW---------eGKRGACaG~f~~l~~~~~~~~p~~~~rEVvhllr  532 (557)
T KOG3785|consen  479 YAAKAFDELEILDP--TPENW---------EGKRGACAGLFRQLANHKTDPIPISQMREVVHLLR  532 (557)
T ss_pred             HHHHhhhHHHccCC--Ccccc---------CCccchHHHHHHHHHcCCCCCCchhHHHHHHHHHH
Confidence            99999999887754  44444         46666677788877766555555555555555443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.83  E-value=0.067  Score=38.19  Aligned_cols=141  Identities=12%  Similarity=0.022  Sum_probs=99.7

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC---CCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV---QLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      .|++.+|-..|+++.+. .|.|...+...=++|...|+.+.....+++..-.   +++.....-....-++..+|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            46777788888888876 4668899999999999999999888888876643   2222222333444566789999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---------------CChHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA---------------GRPTEAMQLYDSM  146 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------------~~~~~a~~~~~~m  146 (176)
                      ++.-++..+.+.. |.-.-......+-..|++.++.+++.+-...--..+..               +.++.|+++|++=
T Consensus       195 Ek~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~e  273 (491)
T KOG2610|consen  195 EKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDRE  273 (491)
T ss_pred             HHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHHH
Confidence            9999888877543 66666667777778889999988877643211100000               8899999999665


Q ss_pred             H
Q 030489          147 L  147 (176)
Q Consensus       147 ~  147 (176)
                      .
T Consensus       274 i  274 (491)
T KOG2610|consen  274 I  274 (491)
T ss_pred             H
Confidence            4

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.82  E-value=0.048  Score=37.51  Aligned_cols=99  Identities=17%  Similarity=0.177  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC--CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CcHHHHHH
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL--KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK--ANVVTYSC  102 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~  102 (176)
                      ...|+.-+..+ +.|++..|.+.|....+...  .-....+..|..++...|+++.|..+|..+.+.-.+  --+...-.
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 TKLYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             hHHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            45777777755 77889999999988887632  223456777889999999999999999988865322  23467777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC
Q 030489          103 LIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       103 l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      |.....+.|+.++|..+|+++.+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            888889999999999999998764

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.79  E-value=0.1  Score=36.90  Aligned_cols=117  Identities=15%  Similarity=0.323  Sum_probs=75.9

Q ss_pred             hhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh--cC----CHHHHHHHHHHHHhcCC---CCcHHHHHHHHHHHHhcCC-
Q 030489           43 LDEAVQLFEKLTCVQLKPNSITFTILIDAFCK--EG----RMDDATMMFSKMLEKGP---KANVVTYSCLIDGYFKSQN-  112 (176)
Q Consensus        43 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~-  112 (176)
                      +++.+.+++.|.+.|+.-+..+|-+.......  ..    ...+|..+|+.|++..+   .++-.++..++..  ..++ 
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            45677888888888888777666553333322  22    35568888999987643   3344555555444  3333 


Q ss_pred             ---HHHHHHHHHHHHHCCCCCCCC----------------CChHHHHHHHHHHHHCCCCCcHHHHHHH
Q 030489          113 ---MKSAFDVYEEMCENNISPNIA----------------GRPTEAMQLYDSMLRNGIMPDGLLLSTL  161 (176)
Q Consensus       113 ---~~~a~~~~~~m~~~~~~~~~~----------------~~~~~a~~~~~~m~~~g~~p~~~~~~~l  161 (176)
                         .+.+..+|+.+.+.|...+..                ....++.++++.+.+.|+++....|..+
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence               355667777777777766665                2256788888888888888777766544

>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=96.77  E-value=0.00012  Score=45.73  Aligned_cols=127  Identities=17%  Similarity=0.163  Sum_probs=86.0

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC
Q 030489           32 TIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ  111 (176)
Q Consensus        32 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  111 (176)
                      .++..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++..       +..-...++..|.+.|
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            456677778888888889988887766667888889999999998878887777621       1133456778888888


Q ss_pred             CHHHHHHHHHHHHHCCC--CC-CCCCChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCc
Q 030489          112 NMKSAFDVYEEMCENNI--SP-NIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGS  171 (176)
Q Consensus       112 ~~~~a~~~~~~m~~~~~--~~-~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  171 (176)
                      .++++.-++.++....-  .. ...++++.|.+++.+      .++...|..+++.|...++.
T Consensus        85 l~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~------~~~~~l~~~l~~~~l~~~~~  141 (143)
T PF00637_consen   85 LYEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKK------VDDPELWEQLLKYCLDSKPF  141 (143)
T ss_dssp             SHHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGG------CSSSHHHHHHHHHHCTSTCT
T ss_pred             hHHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHh------cCcHHHHHHHHHHHHhcCcc
Confidence            88888888887643211  11 111555555533332      24578888888888777654

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.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.77  E-value=0.072  Score=34.84  Aligned_cols=103  Identities=13%  Similarity=0.115  Sum_probs=69.6

Q ss_pred             CCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-CcHHHHH
Q 030489           23 LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK-ANVVTYS  101 (176)
Q Consensus        23 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~  101 (176)
                      +-|+...--.|..+..+.|+..+|...|.+...--+.-|....-.+.++....+++..|...++.+.+..+. .+..+.-
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            356666666777777777888788777777665444556666667777777777777777777777765421 1223444


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Q 030489          102 CLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus       102 ~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      .+...|...|.+..|..-|+...+
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~  188 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAIS  188 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHH
Confidence            556677777777777777777655

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.74  E-value=0.13  Score=37.42  Aligned_cols=143  Identities=15%  Similarity=0.138  Sum_probs=88.5

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHh---------CCChhHHHHHHHHHHhCCCCcChhhH---HHHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS---------LNRLDEAVQLFEKLTCVQLKPNSITF---TILIDAF   72 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~---------~~~~~~a~~~~~~m~~~~~~~~~~~~---~~ll~~~   72 (176)
                      .|+.++|++++..+......+++.+|..+.+.|-.         ...+++|+..|.+--+.  .||..+=   .+|+...
T Consensus       195 ~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~  272 (374)
T PF13281_consen  195 PGDREKALQILLPVLESDENPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLA  272 (374)
T ss_pred             CCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHc
Confidence            78999999999986655567788888887777632         22367888888765543  2332221   1222222


Q ss_pred             HhcC-CHHHHHHHH---HHHH-hcC---CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHH
Q 030489           73 CKEG-RMDDATMMF---SKML-EKG---PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYD  144 (176)
Q Consensus        73 ~~~~-~~~~a~~~~---~~~~-~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~  144 (176)
                      +... .-.+..++-   ..+. +.|   ...+---+..+++++.-.|++++|.+..++|.....+.+..+..-+-+.++.
T Consensus       273 g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~W~l~St~~ni~Li~  352 (374)
T PF13281_consen  273 GHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPAWELESTLENIKLIR  352 (374)
T ss_pred             CCcccchHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcchhHHHHHHHHHHHH
Confidence            2211 111222222   2222 222   2334555678899999999999999999999887655555566666677777


Q ss_pred             HHHHC
Q 030489          145 SMLRN  149 (176)
Q Consensus       145 ~m~~~  149 (176)
                      +....
T Consensus       353 ~~~~~  357 (374)
T PF13281_consen  353 HFRKR  357 (374)
T ss_pred             HHhcC
Confidence            77643

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.72  E-value=0.061  Score=33.44  Aligned_cols=72  Identities=11%  Similarity=0.222  Sum_probs=54.1

Q ss_pred             hhhCChhHHHHHHHHHhhCCC--CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh
Q 030489            3 IKECHLDAALKLFGQLTDRGL--EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK   74 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   74 (176)
                      .+.|+++.|.+.|+.+..+=+  +-...+--.++.+|.+.+++++|+..+++..+....--..-|-..+.+++.
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            468999999999999998721  224566778999999999999999999998886543333445555555543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.70  E-value=0.11  Score=35.86  Aligned_cols=85  Identities=18%  Similarity=0.341  Sum_probs=51.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCCC-------
Q 030489           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPK--ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI-SPNIA-------  133 (176)
Q Consensus        64 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~-------  133 (176)
                      .|+.-+.. .+.|++..|.+.|...++..+.  .....+--|.+++...|+++.|..+|..+.+.-. .|...       
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            45544443 3455577777777777765321  1233455567777777777777777777655322 22221       


Q ss_pred             ------CChHHHHHHHHHHHHC
Q 030489          134 ------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus       134 ------~~~~~a~~~~~~m~~~  149 (176)
                            |+.++|-..|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence                  7777777777777754

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=96.70  E-value=0.014  Score=45.79  Aligned_cols=105  Identities=21%  Similarity=0.308  Sum_probs=72.2

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      .+.++|.+|+.+++.+..+.  .-..-|..+...|+..|+++.|.++|-+.         ..++..|..|.+.|+++.|.
T Consensus       743 i~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHH
Confidence            45678899999999887763  33455677888899999999998888542         24667788889999998888


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHH
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVY  120 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  120 (176)
                      ++-++..  |+...+..|-.-..-+-++|++.+|.+++
T Consensus       812 kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  812 KLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            8776653  23334445555555555555555555444

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.68  E-value=0.15  Score=41.71  Aligned_cols=87  Identities=14%  Similarity=0.179  Sum_probs=66.3

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      .+.+|..+..+-.+.|...+|++-|-+.      -|+..|.-+++...+.|.+++-.+++...++..-.|.+.  +.|+.
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~ 1174 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIF 1174 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHH
Confidence            4567888888888888888887776442      267788889999999999999888888777765555544  57888


Q ss_pred             HHHhcCCHHHHHHHH
Q 030489          106 GYFKSQNMKSAFDVY  120 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~  120 (176)
                      +|++.++..+..+++
T Consensus      1175 AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1175 AYAKTNRLTELEEFI 1189 (1666)
T ss_pred             HHHHhchHHHHHHHh
Confidence            888888887766555

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.67  E-value=0.032  Score=45.31  Aligned_cols=134  Identities=13%  Similarity=0.082  Sum_probs=88.2

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      |+..|..+++...+.|.|++-.+++...++..-.|.+.  +.|+-+|++.+++.+.+++.       .-|+......+-+
T Consensus      1132 Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGd 1202 (1666)
T KOG0985|consen 1132 DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGD 1202 (1666)
T ss_pred             CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhH
Confidence            77889999999999999999999998777765555544  57899999999988766554       2356777777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCCC---CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          106 GYFKSQNMKSAFDVYEEMCENNISPNIA---GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~---~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      -|...+.++.|.-+|.....-..-....   |++..|...-++.      -+..||..+-.+|...+.+..|
T Consensus      1203 rcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EFrlA 1268 (1666)
T KOG0985|consen 1203 RCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFACVDKEEFRLA 1268 (1666)
T ss_pred             HHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHhchhhhhHH
Confidence            7778888888777776543211000000   4444444333332      2445666666666655554443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.61  E-value=0.026  Score=39.74  Aligned_cols=47  Identities=23%  Similarity=0.345  Sum_probs=26.2

Q ss_pred             CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      ++++++.++..-++.|+-||..+++.+|+.+.+.+++.+|.++...|
T Consensus       115 ~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~  161 (418)
T KOG4570|consen  115 DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEV  161 (418)
T ss_pred             ChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHH
Confidence            34455555555555555555555555555555555555555555444

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.60  E-value=0.073  Score=37.09  Aligned_cols=79  Identities=14%  Similarity=0.194  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHh-----cCCCCcHHHHH
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLE-----KGPKANVVTYS  101 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  101 (176)
                      ..++..++..+...|+.+.+...++++.... +-+...|..+|.+|.+.|+...|+..|+++.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            3456778888889999999999999998875 34888999999999999999999999998875     68888888887


Q ss_pred             HHHHH
Q 030489          102 CLIDG  106 (176)
Q Consensus       102 ~l~~~  106 (176)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            77666

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.57  E-value=0.1  Score=39.43  Aligned_cols=118  Identities=15%  Similarity=0.165  Sum_probs=83.2

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHH-HHHHHHHhCCChhHHHHHHHHHHhC--CC-CcChhhHHHHHHHHHhcCCHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYN-TIICGYCSLNRLDEAVQLFEKLTCV--QL-KPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~--~~-~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      ....+.|.++++.+.++  -|+...|. .-.+.+...|+.++|++.|+.....  .. ......+--+.-++.-..++++
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            45678899999999887  56666665 4456677899999999999975532  11 1122333445666788999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHH-HHHhcCCH-------HHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLID-GYFKSQNM-------KSAFDVYEEMCE  125 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~g~~-------~~a~~~~~~m~~  125 (176)
                      |.+.|..+.+.+- .+..+|..+.- ++...|+.       ++|.++|.+...
T Consensus       324 A~~~f~~L~~~s~-WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  324 AAEYFLRLLKESK-WSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHhccc-cHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            9999999998643 35555555543 44556777       888889888743

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.55  E-value=0.1  Score=33.74  Aligned_cols=123  Identities=16%  Similarity=0.169  Sum_probs=59.7

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccH-HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChh-hHHHHHHH--HHhcCCH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDI-ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDA--FCKEGRM   78 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~--~~~~~~~   78 (176)
                      .+.|..++|+.-|..+.+.|...-+ -.--.......+.|+...|...|.+.-.....|-+. -...|=.+  +...|-+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            3455666666666666655433211 112233334455666666666666655432222211 11111111  2445556


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +....-.+.+...+-+.....--.|--+--+.|++.+|.+.|.++.+
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            66665555555444333344444454555566666666666666554

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.54  E-value=0.15  Score=35.62  Aligned_cols=90  Identities=17%  Similarity=0.162  Sum_probs=72.4

Q ss_pred             CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCCCC--
Q 030489           59 KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ---NMKSAFDVYEEMCENNISPNIA--  133 (176)
Q Consensus        59 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~m~~~~~~~~~~--  133 (176)
                      +-|...|-.|-.+|...|+...|..-|.+..+...+ +...+..+..++....   .-.++..+|+++...+......  
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            448889999999999999999999999999987544 7888888877765543   3568899999988754322222  


Q ss_pred             ---------CChHHHHHHHHHHHHC
Q 030489          134 ---------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus       134 ---------~~~~~a~~~~~~m~~~  149 (176)
                               |++.+|...|+.|.+.
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhc
Confidence                     9999999999999976

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=96.54  E-value=0.013  Score=45.96  Aligned_cols=100  Identities=20%  Similarity=0.264  Sum_probs=68.8

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      ..|+++.|..-|-+..         .....+.+-.....|.+|+.+++.++.+..  -...|..+.+.|...|+++.|.+
T Consensus       718 ~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~  786 (1636)
T KOG3616|consen  718 QIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEE  786 (1636)
T ss_pred             HHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHH
Confidence            3456666665553322         223456667778889999988888776532  33456677788888899988888


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      +|-+.         ..++-.|..|.+.|+|+.|.++-++.
T Consensus       787 lf~e~---------~~~~dai~my~k~~kw~da~kla~e~  817 (1636)
T KOG3616|consen  787 LFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEEC  817 (1636)
T ss_pred             HHHhc---------chhHHHHHHHhccccHHHHHHHHHHh
Confidence            88542         24556778888889998888877654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=96.54  E-value=0.041  Score=43.79  Aligned_cols=48  Identities=17%  Similarity=0.173  Sum_probs=36.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHh
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTC   55 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   55 (176)
                      |+.-|+.+.|.+-.+.+.      +..+|..+.++|.+.++++-|.-.+-.|..
T Consensus       738 yvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~  785 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKN  785 (1416)
T ss_pred             EEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhh
Confidence            455678888877766654      567899999999999998887766665543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.49  E-value=0.16  Score=38.22  Aligned_cols=92  Identities=15%  Similarity=0.119  Sum_probs=73.3

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 030489           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM  113 (176)
Q Consensus        34 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  113 (176)
                      ...+.+.|++..|+..|.++.... +-|...|..-.-+|.+.|.+..|..=.+.-++.++ +....|..=..++.-..+|
T Consensus       365 Gne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p-~~~kgy~RKg~al~~mk~y  442 (539)
T KOG0548|consen  365 GNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDP-NFIKAYLRKGAALRAMKEY  442 (539)
T ss_pred             HHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCc-hHHHHHHHHHHHHHHHHHH
Confidence            556778899999999999998886 44788899999999999999999888777777753 3566666666677777789


Q ss_pred             HHHHHHHHHHHHCC
Q 030489          114 KSAFDVYEEMCENN  127 (176)
Q Consensus       114 ~~a~~~~~~m~~~~  127 (176)
                      ++|++.|.+-.+.+
T Consensus       443 dkAleay~eale~d  456 (539)
T KOG0548|consen  443 DKALEAYQEALELD  456 (539)
T ss_pred             HHHHHHHHHHHhcC
Confidence            99999998876654

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=96.45  E-value=0.11  Score=36.29  Aligned_cols=114  Identities=11%  Similarity=0.141  Sum_probs=75.4

Q ss_pred             hhHHHHHHHHHhh-CCCCccHHHHHHHHHHHHh-CCC-hhHHHHHHHHHH-hCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            8 LDAALKLFGQLTD-RGLEPDIITYNTIICGYCS-LNR-LDEAVQLFEKLT-CVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         8 ~~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~~-~~~-~~~a~~~~~~m~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      +.+|+.+|+...- ..+-.|..+...+++.... .+. ...--++.+.+. ..+..++..+...++..+++.+++.+-.+
T Consensus       144 Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~  223 (292)
T PF13929_consen  144 VVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQ  223 (292)
T ss_pred             HHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHH
Confidence            4556666663322 2345577777777777765 222 222222222232 23456788888888888999999998888


Q ss_pred             HHHHHHhc-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Q 030489           84 MFSKMLEK-GPKANVVTYSCLIDGYFKSQNMKSAFDVYE  121 (176)
Q Consensus        84 ~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  121 (176)
                      +++..... +..-|...|..+|+.-.+.|+..-...+.+
T Consensus       224 fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  224 FWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             HHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            88877754 566688889999999999988876555554

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=96.45  E-value=0.25  Score=38.96  Aligned_cols=41  Identities=15%  Similarity=-0.069  Sum_probs=28.5

Q ss_pred             CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          134 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ++.+.|++..++..+-+-.-+...+..+.-.+...++..+|
T Consensus       492 R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~A  532 (799)
T KOG4162|consen  492 RQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEA  532 (799)
T ss_pred             HhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHH
Confidence            77788888887777665555666777666666666666554

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=96.39  E-value=0.064  Score=43.44  Aligned_cols=121  Identities=16%  Similarity=0.048  Sum_probs=63.1

Q ss_pred             chhhCChhHHHHHHHHHhhCCC-CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGL-EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      |++...++.|..+.-..-+... ..-...|....-.|.+.+++.+++.-|+...+..+. |...|..+..+|.++|++..
T Consensus       536 yae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~  614 (1238)
T KOG1127|consen  536 YAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSH  614 (1238)
T ss_pred             hhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceeh
Confidence            3455566666665222111110 001222334444556666677777766666655433 66666777777777777777


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      |.++|.+.....+. +...--...-.-+..|++.+++..+..+.
T Consensus       615 AlKvF~kAs~LrP~-s~y~~fk~A~~ecd~GkYkeald~l~~ii  657 (1238)
T KOG1127|consen  615 ALKVFTKASLLRPL-SKYGRFKEAVMECDNGKYKEALDALGLII  657 (1238)
T ss_pred             HHHhhhhhHhcCcH-hHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            77777666654322 22221122223345566666666666553

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.38  E-value=0.14  Score=33.52  Aligned_cols=67  Identities=19%  Similarity=0.215  Sum_probs=35.7

Q ss_pred             CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           59 KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        59 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      .|++.--..|..+....|+..+|...|++...--+..|....-.+..+....+++..|...++.+.+
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e  152 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLME  152 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhh
Confidence            3444444455555555555555555555554433444555555555555555555555555555544

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.36  E-value=0.18  Score=34.52  Aligned_cols=53  Identities=21%  Similarity=0.239  Sum_probs=23.8

Q ss_pred             hCCChhHHHHHHHHHHhCCC--CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 030489           39 SLNRLDEAVQLFEKLTCVQL--KPNSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (176)
Q Consensus        39 ~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   91 (176)
                      +.|++++|...|+.+..+..  +-...+--.++-++.+.++++.|....++..+.
T Consensus        46 ~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          46 QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            45555555555555543311  112222233334445555555555555555443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.33  E-value=0.16  Score=36.28  Aligned_cols=52  Identities=8%  Similarity=0.046  Sum_probs=25.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHH
Q 030489           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDV  119 (176)
Q Consensus        64 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  119 (176)
                      +.+..+.-+...|+...|.++-.+..    .|+..-|-.-+.+|+..++|++-.++
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~f  230 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKF  230 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHH
Confidence            33344444455555555555444432    23555555555555555555554443

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

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

Probab=96.26  E-value=0.36  Score=37.62  Aligned_cols=84  Identities=8%  Similarity=0.114  Sum_probs=41.2

Q ss_pred             HHhCCChhHHHHHHHHHHhC-CCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH
Q 030489           37 YCSLNRLDEAVQLFEKLTCV-QLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKS  115 (176)
Q Consensus        37 ~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  115 (176)
                      ..++|+.......|+..... .+......|...+......+-++-+..+++...+.    ++..-+-.+..+++.+++++
T Consensus       112 l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~d~~~e  187 (835)
T KOG2047|consen  112 LIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKSDRLDE  187 (835)
T ss_pred             HHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhccchHH
Confidence            33444444444444443322 22223334444555555555556666666655543    22234455555566666666


Q ss_pred             HHHHHHHHH
Q 030489          116 AFDVYEEMC  124 (176)
Q Consensus       116 a~~~~~~m~  124 (176)
                      |-+.+....
T Consensus       188 aa~~la~vl  196 (835)
T KOG2047|consen  188 AAQRLATVL  196 (835)
T ss_pred             HHHHHHHhc
Confidence            666555543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.19  E-value=0.057  Score=38.13  Aligned_cols=83  Identities=19%  Similarity=0.288  Sum_probs=63.1

Q ss_pred             hCChhHHHHHHHHHhhCC---CCc--cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHH
Q 030489            5 ECHLDAALKLFGQLTDRG---LEP--DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD   79 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~---~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   79 (176)
                      ..++++++.++-.++.+-   ..|  +.++|-.++.-|    +.++++.++..-.+.|+-||..+++.+|+.+.+.+++.
T Consensus        77 ~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlllky----~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~  152 (418)
T KOG4570|consen   77 REEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLLKY----DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYK  152 (418)
T ss_pred             ccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHHcc----ChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHH
Confidence            467788888877776541   122  344444444333    57799999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc
Q 030489           80 DATMMFSKMLEK   91 (176)
Q Consensus        80 ~a~~~~~~~~~~   91 (176)
                      .|-.+.-.|...
T Consensus       153 ~aa~vvt~~~~q  164 (418)
T KOG4570|consen  153 DAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHHHHH
Confidence            998888777644

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.18  E-value=0.027  Score=27.29  Aligned_cols=40  Identities=18%  Similarity=0.303  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHH
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTIL   68 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   68 (176)
                      .+|..+..+|...|++++|+++|++..+.... |...+..+
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~-~~~a~~~L   41 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPD-DPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-CHHHHHHh
Confidence            46778888999999999999999998886422 44444433

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.14  E-value=0.39  Score=36.21  Aligned_cols=82  Identities=18%  Similarity=0.162  Sum_probs=58.6

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhCCCC-cChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHH
Q 030489           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLK-PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGP-KANVVTYSCLIDGYF  108 (176)
Q Consensus        31 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~  108 (176)
                      ..+..++.+.|+.++|++.+++|.+.... -+......|+.++...+.+.++..++.+.-+... +.-...|+..+-.+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            35666677899999999999999865322 2345677899999999999999999998765432 223455777665444


Q ss_pred             hcCC
Q 030489          109 KSQN  112 (176)
Q Consensus       109 ~~g~  112 (176)
                      ..++
T Consensus       343 av~d  346 (539)
T PF04184_consen  343 AVGD  346 (539)
T ss_pred             hhcc
Confidence            4443

The molecular function of this protein is uncertain.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.13  E-value=0.14  Score=38.42  Aligned_cols=98  Identities=14%  Similarity=0.172  Sum_probs=63.4

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      +.|+++.|.++.++      ..+...|..|.....+.|+++-|++.|.+..         -|..|+-.|...|+.++..+
T Consensus       330 ~lg~L~~A~~~a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~k  394 (443)
T PF04053_consen  330 QLGNLDIALEIAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSK  394 (443)
T ss_dssp             HCT-HHHHHHHCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHH
T ss_pred             hcCCHHHHHHHHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHH
Confidence            34555555544322      2367788888888888888888888886643         26777777788888877777


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE  122 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  122 (176)
                      +.+.....|-      +|....++...|+.++..+++.+
T Consensus       395 l~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  395 LAKIAEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            7766665542      45556666677777777777654

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=96.10  E-value=0.022  Score=26.26  Aligned_cols=26  Identities=19%  Similarity=0.244  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           99 TYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        99 ~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      +|+.|...|.+.|++++|++++++..
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            46777888888888888888888743

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.08  E-value=0.13  Score=37.39  Aligned_cols=97  Identities=14%  Similarity=0.086  Sum_probs=76.2

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhC-----CCC---------cChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHH
Q 030489           34 ICGYCSLNRLDEAVQLFEKLTCV-----QLK---------PNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVT   99 (176)
Q Consensus        34 l~~~~~~~~~~~a~~~~~~m~~~-----~~~---------~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   99 (176)
                      -+.|.+.|++..|..-|++....     +..         .-...+..|.-+|.+.+++.+|++.-......+. +|+..
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 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP-NNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC-CchhH
Confidence            45688999999999988775432     111         1234567788889999999999999999998865 48888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC
Q 030489          100 YSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA  133 (176)
Q Consensus       100 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  133 (176)
                      .-.=-.+|...|+++.|+..|+.+.+.  .|+..
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nk  325 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKL--EPSNK  325 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcH
Confidence            888889999999999999999999874  44444

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=96.06  E-value=0.022  Score=26.29  Aligned_cols=23  Identities=17%  Similarity=0.313  Sum_probs=12.0

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHH
Q 030489           30 YNTIICGYCSLNRLDEAVQLFEK   52 (176)
Q Consensus        30 ~~~ll~~~~~~~~~~~a~~~~~~   52 (176)
                      |..|...|.+.|++++|+++|++
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            44555555555555555555554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.04  E-value=0.39  Score=35.90  Aligned_cols=92  Identities=15%  Similarity=0.130  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCC-CCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHH-HHHHHH
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-LKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVT-YSCLID  105 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~  105 (176)
                      -+|...|++..+..-++.|..+|-+..+.| +.+++..++++|..++ .|+..-|..+|+--...-  ||... -+..+.
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f--~d~~~y~~kyl~  474 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF--PDSTLYKEKYLL  474 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC--CCchHHHHHHHH
Confidence            456666666666666777777777777776 4566666777776554 455666677776544332  23322 344555


Q ss_pred             HHHhcCCHHHHHHHHHH
Q 030489          106 GYFKSQNMKSAFDVYEE  122 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~  122 (176)
                      .+...++-..|..+|+.
T Consensus       475 fLi~inde~naraLFet  491 (660)
T COG5107         475 FLIRINDEENARALFET  491 (660)
T ss_pred             HHHHhCcHHHHHHHHHH
Confidence            66667777777777763

>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=95.93  E-value=0.19  Score=30.92  Aligned_cols=121  Identities=17%  Similarity=0.340  Sum_probs=72.2

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-CC----------------CcChhhHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-QL----------------KPNSITFT   66 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~----------------~~~~~~~~   66 (176)
                      -.|..++..++..+...+.   +..-+|=++.-....-+=+-..++++..-+. .+                ..+...+.
T Consensus        14 ldG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~NlKrVi~C~~~~n~~se~vD   90 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCGNLKRVIECYAKRNKLSEYVD   90 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S-THHHHHHHHHTT---HHHH
T ss_pred             HhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhhcCchhhcchHHHHHHHHHhcchHHHHH
Confidence            3677888888888877642   3333333333333333334444444433221 00                11334456


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 030489           67 ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        67 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  128 (176)
                      ..++...+.|.-++-.+++.++.+. -.+++...-.+..+|.+.|+..++.+++.+..+.|+
T Consensus        91 ~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   91 LALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            6678888889999989999888763 456888888999999999999999999999988775

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=95.89  E-value=0.24  Score=31.80  Aligned_cols=103  Identities=13%  Similarity=0.141  Sum_probs=73.6

Q ss_pred             HHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 030489           11 ALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        11 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   90 (176)
                      -.++...+.+.+++|+...+..+++.+.+.|++...    .++.+.++-+|.......+-.+..  ....+.++--+|..
T Consensus        13 llEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLk   86 (167)
T PF07035_consen   13 LLEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLK   86 (167)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHH
Confidence            345666777889999999999999999999987665    555567777777766655544433  34455555555543


Q ss_pred             cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           91 KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        91 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      +    -...+..+++.+...|++-+|+++.+..
T Consensus        87 R----L~~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   87 R----LGTAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             H----hhhhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence            2    1125667888899999999999998875

>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=95.88  E-value=0.013  Score=36.48  Aligned_cols=81  Identities=11%  Similarity=0.187  Sum_probs=56.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.+.+.++....+++.+...+...+....+.++..|++.++.++.+++++..       +..-...++..|.+.|.++++
T Consensus        17 ~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   17 FEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTTSHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcchHHHH
Confidence            3456778888889999988776678999999999999999888888888721       112234556666666666666


Q ss_pred             HHHHHHHH
Q 030489           82 TMMFSKML   89 (176)
Q Consensus        82 ~~~~~~~~   89 (176)
                      .-++..+.
T Consensus        90 ~~Ly~~~~   97 (143)
T PF00637_consen   90 VYLYSKLG   97 (143)
T ss_dssp             HHHHHCCT
T ss_pred             HHHHHHcc
Confidence            66665543

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.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.85  E-value=0.27  Score=31.99  Aligned_cols=97  Identities=13%  Similarity=0.176  Sum_probs=65.7

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc---CCCCcHHHHH
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN--SITFTILIDAFCKEGRMDDATMMFSKMLEK---GPKANVVTYS  101 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~  101 (176)
                      ...+..+...|.+.|+.++|++.|.++......+.  ...+-.+|......+++..+.....+....   +.+++...--
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            46788999999999999999999999887644433  455667788888899999888887766532   2222222211


Q ss_pred             HHHHH--HHhcCCHHHHHHHHHHH
Q 030489          102 CLIDG--YFKSQNMKSAFDVYEEM  123 (176)
Q Consensus       102 ~l~~~--~~~~g~~~~a~~~~~~m  123 (176)
                      ....+  +...+++..|-+.|-+.
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHcc
Confidence            22222  23457788877777654

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.79  E-value=0.43  Score=33.84  Aligned_cols=125  Identities=11%  Similarity=0.224  Sum_probs=81.3

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHh--CC----ChhHHHHHHHHHHhCCC---CcChhhHHHHHHHHHhcCC
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCS--LN----RLDEAVQLFEKLTCVQL---KPNSITFTILIDAFCKEGR   77 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~--~~----~~~~a~~~~~~m~~~~~---~~~~~~~~~ll~~~~~~~~   77 (176)
                      .+++..++++.|.+.|+..+..+|-+.......  ..    ...++..+|+.|++...   .++..++..|+..  ..++
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            356778899999999998888777654443333  22    25688999999998743   2344555555544  3343


Q ss_pred             ----HHHHHHHHHHHHhcCCCCcHH--HHHHHHHHHHhcCC--HHHHHHHHHHHHHCCCCCCCC
Q 030489           78 ----MDDATMMFSKMLEKGPKANVV--TYSCLIDGYFKSQN--MKSAFDVYEEMCENNISPNIA  133 (176)
Q Consensus        78 ----~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~--~~~a~~~~~~m~~~~~~~~~~  133 (176)
                          .+.++..|+.+.+.|+..+-.  ....++...-...+  ...+.++++.+.+.|+++...
T Consensus       155 ~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~  218 (297)
T PF13170_consen  155 VEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYM  218 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccc
Confidence                356778888888878765433  23333333322222  447888999999999887766

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.69  E-value=0.45  Score=33.39  Aligned_cols=125  Identities=10%  Similarity=0.073  Sum_probs=67.0

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      ...|++..|..+|+........ +...--.+..+|...|+.+.|..++..+...--.........-|..+.+........
T Consensus       145 ~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~~  223 (304)
T COG3118         145 IEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEIQ  223 (304)
T ss_pred             hhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCHH
Confidence            3456677777777766655322 455555677777777777777777766654321112222122233333333333333


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP  130 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  130 (176)
                      .+-+..-.. +. |...-..+...+...|+.+.|.+.+-.+...+...
T Consensus       224 ~l~~~~aad-Pd-d~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~  269 (304)
T COG3118         224 DLQRRLAAD-PD-DVEAALALADQLHLVGRNEAALEHLLALLRRDRGF  269 (304)
T ss_pred             HHHHHHHhC-CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc
Confidence            333332221 22 55566666777777777777777766665544333

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.67  E-value=0.028  Score=25.65  Aligned_cols=32  Identities=25%  Similarity=0.500  Sum_probs=21.4

Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 030489           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAF  117 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  117 (176)
                      |++.++..+. +..+|+.+...|...|++++|+
T Consensus         2 y~kAie~~P~-n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPN-NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCC-CHHHHHHHHHHHHHCcCHHhhc
Confidence            3444555444 7777777777777777777764

>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=95.56  E-value=0.29  Score=30.21  Aligned_cols=85  Identities=15%  Similarity=0.155  Sum_probs=58.9

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      .+|++......+-.+-     .+...+...++.....|+-+.-.+++..+.+. -.+++...-.+..+|.+.|+..++.+
T Consensus        68 ~C~NlKrVi~C~~~~n-----~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~e  141 (161)
T PF09205_consen   68 KCGNLKRVIECYAKRN-----KLSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANE  141 (161)
T ss_dssp             G-S-THHHHHHHHHTT--------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHH
T ss_pred             hhcchHHHHHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHH
Confidence            4555666666654322     25566778889999999999999999998763 36788888899999999999999999


Q ss_pred             HHHHHHhcCCC
Q 030489           84 MFSKMLEKGPK   94 (176)
Q Consensus        84 ~~~~~~~~~~~   94 (176)
                      ++.+.-+.|.+
T Consensus       142 ll~~ACekG~k  152 (161)
T PF09205_consen  142 LLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHTT-H
T ss_pred             HHHHHHHhchH
Confidence            99999888764

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.54  E-value=0.021  Score=26.03  Aligned_cols=32  Identities=16%  Similarity=0.292  Sum_probs=21.2

Q ss_pred             HHHHhhCCCCccHHHHHHHHHHHHhCCChhHHH
Q 030489           15 FGQLTDRGLEPDIITYNTIICGYCSLNRLDEAV   47 (176)
Q Consensus        15 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   47 (176)
                      |++.++.. |-+..+|+.+...|...|++++|+
T Consensus         2 y~kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            34444443 336777888888888888877775

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.52  E-value=0.3  Score=30.19  Aligned_cols=103  Identities=12%  Similarity=0.109  Sum_probs=71.1

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      .+.+.......+++.+...+ +.+...++.++..|++.. ..+.++.+..      .++......+++.|.+.+.++++.
T Consensus        18 ~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~~l~~~~~   89 (140)
T smart00299       18 EKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKAKLYEEAV   89 (140)
T ss_pred             HhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHcCcHHHHH
Confidence            34578889999999998887 468889999999999764 4455555542      124444566888888888888888


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhc-CCHHHHHHHHHH
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKS-QNMKSAFDVYEE  122 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~  122 (176)
                      -++..+..     ...+    +..+... ++++.|.+++.+
T Consensus        90 ~l~~k~~~-----~~~A----l~~~l~~~~d~~~a~~~~~~  121 (140)
T smart00299       90 ELYKKDGN-----FKDA----IVTLIEHLGNYEKAIEYFVK  121 (140)
T ss_pred             HHHHhhcC-----HHHH----HHHHHHcccCHHHHHHHHHh
Confidence            88877632     2222    3333333 778888777765

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=95.45  E-value=0.83  Score=34.82  Aligned_cols=145  Identities=12%  Similarity=0.094  Sum_probs=96.2

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      +.|....-+++..++.+-++.-++.+..+|...|  -+-..|..++.+|... ..++-..+|+++.+..+. |+..-..|
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReL  138 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGREL  138 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHH
Confidence            4567777888999999999999999999998875  4677888899999888 667778889988888765 55555555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---------------CChHHHHHHHHHHH-HCCCCCcHHHHHHHHHHhhc
Q 030489          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIA---------------GRPTEAMQLYDSML-RNGIMPDGLLLSTLADYNLQ  167 (176)
Q Consensus       104 ~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------------~~~~~a~~~~~~m~-~~g~~p~~~~~~~l~~~~~~  167 (176)
                      ..-|-+ ++..++..+|.....+-++....               .+.+..+.+..++. ..|...-...+.-+..-|..
T Consensus       139 a~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~  217 (711)
T COG1747         139 ADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELIGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            555544 77777777887776543331111               45555555555554 33333333444444455555


Q ss_pred             ccCccc
Q 030489          168 SSGSQE  173 (176)
Q Consensus       168 ~g~~~~  173 (176)
                      ..++.+
T Consensus       218 ~eN~~e  223 (711)
T COG1747         218 NENWTE  223 (711)
T ss_pred             ccCHHH
Confidence            554444

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.45  E-value=0.31  Score=31.68  Aligned_cols=85  Identities=15%  Similarity=0.118  Sum_probs=64.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--CC-----
Q 030489           63 ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKA--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN--IA-----  133 (176)
Q Consensus        63 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~-----  133 (176)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+  -...+-.+|......++|..+.....+....-....  ..     
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            557788999999999999999999998765443  344567788999999999999999887754322211  11     


Q ss_pred             ----------CChHHHHHHHHHHH
Q 030489          134 ----------GRPTEAMQLYDSML  147 (176)
Q Consensus       134 ----------~~~~~a~~~~~~m~  147 (176)
                                +++..|-++|-...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence                      88888888887665

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.

>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=95.42  E-value=0.37  Score=31.91  Aligned_cols=79  Identities=18%  Similarity=0.117  Sum_probs=61.3

Q ss_pred             HhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHh---cCCCCcHHHHHHHHHHHHhcCCHH
Q 030489           38 CSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLE---KGPKANVVTYSCLIDGYFKSQNMK  114 (176)
Q Consensus        38 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~g~~~  114 (176)
                      ...-.-+.|.+.|-.+...+..-++.....|...|. ..+.+++++++-...+   .+-.+|+..+..|...|.+.|+++
T Consensus       117 Wsr~~d~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e  195 (203)
T PF11207_consen  117 WSRFGDQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYE  195 (203)
T ss_pred             hhccCcHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchh
Confidence            344345778888989988877767777776666666 6788899999887764   333678999999999999999999


Q ss_pred             HHH
Q 030489          115 SAF  117 (176)
Q Consensus       115 ~a~  117 (176)
                      .|-
T Consensus       196 ~AY  198 (203)
T PF11207_consen  196 QAY  198 (203)
T ss_pred             hhh
Confidence            874

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.40  E-value=0.74  Score=34.53  Aligned_cols=116  Identities=20%  Similarity=0.241  Sum_probs=88.5

Q ss_pred             CChhHHHHHHHHHhhCC-CCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhH-HHHHHHHHhcCCHHHHHH
Q 030489            6 CHLDAALKLFGQLTDRG-LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITF-TILIDAFCKEGRMDDATM   83 (176)
Q Consensus         6 ~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~ll~~~~~~~~~~~a~~   83 (176)
                      .-++.|..+|-+..+.| +.+++..++++|..+ ..|+..-|..+|+.=...  -||...| +-.+..+...++-+.|..
T Consensus       411 ~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~-~~~d~~ta~~ifelGl~~--f~d~~~y~~kyl~fLi~inde~nara  487 (660)
T COG5107         411 RGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYY-ATGDRATAYNIFELGLLK--FPDSTLYKEKYLLFLIRINDEENARA  487 (660)
T ss_pred             hhHHHHHHHHHHHhccCCCCcceeeeHHHHHHH-hcCCcchHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCcHHHHHH
Confidence            34678999999999988 577888899999866 567888899999754333  3455554 566778889999999999


Q ss_pred             HHHHHHhcCCCC--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           84 MFSKMLEKGPKA--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        84 ~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +|+.-+.. +..  -...|..+|+-=...|+...+..+-+.|..
T Consensus       488 LFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         488 LFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            99965533 222  367899999999999999888777776654

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.39  E-value=0.33  Score=29.91  Aligned_cols=93  Identities=17%  Similarity=0.158  Sum_probs=68.3

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH---HHHHHhc
Q 030489           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL---IDGYFKS  110 (176)
Q Consensus        34 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~  110 (176)
                      .-+.+..|+++.|++.|.+....- +-....||.-..++.-.|+.++|.+=+++..+..-..........   -..|...
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 AIALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            345778899999999998877653 347788999999999999999999888887764333243333333   3467778


Q ss_pred             CCHHHHHHHHHHHHHCC
Q 030489          111 QNMKSAFDVYEEMCENN  127 (176)
Q Consensus       111 g~~~~a~~~~~~m~~~~  127 (176)
                      |+-+.|..=|+...+.|
T Consensus       129 g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLG  145 (175)
T ss_pred             CchHHHHHhHHHHHHhC
Confidence            88888888888776654

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.38  E-value=0.13  Score=40.88  Aligned_cols=83  Identities=18%  Similarity=0.249  Sum_probs=52.0

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC
Q 030489           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN  112 (176)
Q Consensus        33 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  112 (176)
                      ..+.+.+.|++++|.+.|-+-... +.|     ..++.-|....+...--.+++.+.+.|.. +...-+.|+.+|.+.++
T Consensus       374 Ygd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd  446 (933)
T KOG2114|consen  374 YGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKD  446 (933)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcc
Confidence            334445788888888877664432 111     22445555555666666777777777765 67777777778877777


Q ss_pred             HHHHHHHHHH
Q 030489          113 MKSAFDVYEE  122 (176)
Q Consensus       113 ~~~a~~~~~~  122 (176)
                      .++-.++.+.
T Consensus       447 ~~kL~efI~~  456 (933)
T KOG2114|consen  447 VEKLTEFISK  456 (933)
T ss_pred             hHHHHHHHhc
Confidence            6665555443

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=95.25  E-value=0.61  Score=32.57  Aligned_cols=91  Identities=14%  Similarity=0.103  Sum_probs=64.8

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 030489           30 YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK  109 (176)
Q Consensus        30 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  109 (176)
                      ...=|.+++..++|.+++...-+.-+.--+......-.-|-.|.|.+++..+.++-..-.+..-.-+...|..+.+.|..
T Consensus        86 cvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   86 CVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHH
Confidence            34567889999999999887765544322233445555677789999999999888776654333455668888887766


Q ss_pred             -----cCCHHHHHHHH
Q 030489          110 -----SQNMKSAFDVY  120 (176)
Q Consensus       110 -----~g~~~~a~~~~  120 (176)
                           .|.+++|.++.
T Consensus       166 ~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHhccccHHHHHHHH
Confidence                 48888888776

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

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.94  E-value=0.38  Score=28.08  Aligned_cols=62  Identities=13%  Similarity=0.092  Sum_probs=40.5

Q ss_pred             hhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           43 LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        43 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      .-+..+-++.+......|++....+.+.+|.+.+++.-|..+|+-++..- .+....|..++.
T Consensus        26 ~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lq   87 (108)
T PF02284_consen   26 GWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHH
Confidence            34666677777777888888888888888888888888888888877442 222335655544

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 ....

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=94.90  E-value=0.86  Score=31.96  Aligned_cols=151  Identities=18%  Similarity=0.209  Sum_probs=93.8

Q ss_pred             hhhCChhHHHHHHHHHhhCC--CCccH------HHHHHHHHHHHhCC-ChhHHHHHHHHHHhC--------CCCcCh---
Q 030489            3 IKECHLDAALKLFGQLTDRG--LEPDI------ITYNTIICGYCSLN-RLDEAVQLFEKLTCV--------QLKPNS---   62 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~--~~~~~------~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~--------~~~~~~---   62 (176)
                      .+.|+++.|..++.+....-  ..|+.      ..|+.-...+ +.+ +++.|...+++....        ...|+.   
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~-~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLL-SKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHH-HcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            47899999999999887532  23322      2344444444 445 888887777654322        122332   


Q ss_pred             --hhHHHHHHHHHhcCCHH---HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC----
Q 030489           63 --ITFTILIDAFCKEGRMD---DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA----  133 (176)
Q Consensus        63 --~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----  133 (176)
                        .+...++.+|...+..+   +|..+++.+...... .+.++-.-++.+.+.++.+.+.+++.+|...-..+...    
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~  161 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSI  161 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHH
Confidence              45567778888777654   566677777554332 45566666777777999999999999998753323222    


Q ss_pred             ---------CChHHHHHHHHHHHHCCCCCcH
Q 030489          134 ---------GRPTEAMQLYDSMLRNGIMPDG  155 (176)
Q Consensus       134 ---------~~~~~a~~~~~~m~~~g~~p~~  155 (176)
                               .....+...++.+....+.|+.
T Consensus       162 l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  162 LHHIKQLAEKSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHHHhhCcHHHHHHHHHHHHHHhCCCh
Confidence                     4445566666666644444444

It is also involved in sporulation [].

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.83  E-value=0.91  Score=31.89  Aligned_cols=98  Identities=9%  Similarity=0.026  Sum_probs=73.3

Q ss_pred             HHHHHHHHHh-hCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-CCCcChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 030489           10 AALKLFGQLT-DRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-QLKPNSITFTILIDAFCKEGRMDDATMMFSK   87 (176)
Q Consensus        10 ~a~~~~~~~~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~   87 (176)
                      .-.++.+.+. +.+-.++..+...++..+++.++|.+-.+++..-... +...|...|..+|+...+.|+..-..++.++
T Consensus       184 alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  184 ALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             hHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            3345555554 3356788999999999999999999999999887765 6677999999999999999999887777654


Q ss_pred             -----HHhcCCCCcHHHHHHHHHHH
Q 030489           88 -----MLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        88 -----~~~~~~~~~~~~~~~l~~~~  107 (176)
                           +++.++..+...-..+-+.+
T Consensus       264 GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  264 GHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             CCeEEeeecCCcCCHHHHHHHHHHH
Confidence                 33455565555554444443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.72  E-value=0.89  Score=31.29  Aligned_cols=123  Identities=15%  Similarity=0.252  Sum_probs=80.6

Q ss_pred             hhhCChhHHHHHHHHHhhCCC--CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCC-CCcChhhHHHHHHHHHh---c-
Q 030489            3 IKECHLDAALKLFGQLTDRGL--EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-LKPNSITFTILIDAFCK---E-   75 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~---~-   75 (176)
                      .+.|++++|.+.|+.+..+.+  +-...+.-.++-++.+.++++.|+...++..+.. -.||. -|-.-|.+.+.   . 
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~-dY~~YlkgLs~~~~i~  123 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNA-DYAYYLKGLSYFFQID  123 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCCh-hHHHHHHHHHHhccCC
Confidence            468999999999999987632  2246677778888899999999999999887653 33333 33333333332   2 


Q ss_pred             ---CCHH---HHHHHHHHHHhc----CCCCcHHHH------------HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           76 ---GRMD---DATMMFSKMLEK----GPKANVVTY------------SCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        76 ---~~~~---~a~~~~~~~~~~----~~~~~~~~~------------~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                         .+..   .|..-|+++++.    ...||...-            ..+..-|.+.|.+..|..-+++|.+.
T Consensus       124 ~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~  196 (254)
T COG4105         124 DVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLEN  196 (254)
T ss_pred             ccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence               2333   344455555543    122222211            22456788899999999999999875

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.71  E-value=1.4  Score=33.50  Aligned_cols=130  Identities=12%  Similarity=0.128  Sum_probs=85.5

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhC-CCCcC-----hhhHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCcHHH
Q 030489           30 YNTIICGYCSLNRLDEAVQLFEKLTCV-QLKPN-----SITFTILIDAFCK----EGRMDDATMMFSKMLEKGPKANVVT   99 (176)
Q Consensus        30 ~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~-----~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~   99 (176)
                      +..++...+-.|+-+.+++.+.+-.+. ++.-.     .-+|+..+..++.    ....+.|.++++.+.+.  -|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            345666667789999999998876554 33322     2334444444433    45688899999999876  356666


Q ss_pred             HHHH-HHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---------------CChHHHHHHHHHHHHCCCCCcHHHHHHHH
Q 030489          100 YSCL-IDGYFKSQNMKSAFDVYEEMCENNISPNIA---------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLA  162 (176)
Q Consensus       100 ~~~l-~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~  162 (176)
                      |... -..+...|++++|++.|+............               .++++|.+.|.++.+.. .-+..+|.-+.
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~  346 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLA  346 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHH
Confidence            6554 456677899999999999765322111111               99999999999999642 22444554443

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.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=94.69  E-value=0.13  Score=24.10  Aligned_cols=27  Identities=26%  Similarity=0.427  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHH
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLT   54 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~   54 (176)
                      .+++.|...|...|++++|+.++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            345555555555555555555555443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=94.66  E-value=1.2  Score=32.35  Aligned_cols=165  Identities=15%  Similarity=0.199  Sum_probs=105.4

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHH-HHHHHHhcCCHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI-LIDAFCKEGRMDDA   81 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-ll~~~~~~~~~~~a   81 (176)
                      .-.|++.+|+.-|...++-+ +.+-.++..-...|.-.|+-.-|+.=+....+.  +||-..-.. --..+.++|.+++|
T Consensus        49 la~~Q~sDALt~yHaAve~d-p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~Gele~A  125 (504)
T KOG0624|consen   49 LARGQLSDALTHYHAAVEGD-PNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQGELEQA  125 (504)
T ss_pred             HHhhhHHHHHHHHHHHHcCC-chhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcccHHHH
Confidence            44678888888888877653 224555666667788888888888888877764  566332221 12456789999999


Q ss_pred             HHHHHHHHhcCCCCc--HH----------HH--HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------C
Q 030489           82 TMMFSKMLEKGPKAN--VV----------TY--SCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------G  134 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~--~~----------~~--~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~  134 (176)
                      ..=|+.+.+....-.  ..          .|  ...+..+.-.|+...|+.....+.+  +.|+..             |
T Consensus       126 ~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llE--i~~Wda~l~~~Rakc~i~~~  203 (504)
T KOG0624|consen  126 EADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLE--IQPWDASLRQARAKCYIAEG  203 (504)
T ss_pred             HHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHh--cCcchhHHHHHHHHHHHhcC
Confidence            999999988754211  11          11  1234445567888888888888876  355554             7


Q ss_pred             ChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCccc
Q 030489          135 RPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQE  173 (176)
Q Consensus       135 ~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~  173 (176)
                      ++..|+.=++...+.. .-+..++-.+-..+...|+.+.
T Consensus       204 e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~  241 (504)
T KOG0624|consen  204 EPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAEN  241 (504)
T ss_pred             cHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHH
Confidence            7777777666655432 2234455555555556665543

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=94.66  E-value=0.79  Score=30.40  Aligned_cols=73  Identities=16%  Similarity=0.098  Sum_probs=45.2

Q ss_pred             hHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC---CCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            9 DAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV---QLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         9 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      +.|++.|-.+...+.--++.....|...| -..+.+++++++....+.   +-.+|+..+.+|.+.+.+.|+++.|-
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY-~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            45666666666665443444444444444 356677777777665542   33567777777777777777777653

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.56  E-value=1.3  Score=32.48  Aligned_cols=16  Identities=19%  Similarity=0.258  Sum_probs=11.1

Q ss_pred             CChHHHHHHHHHHHHC
Q 030489          134 GRPTEAMQLYDSMLRN  149 (176)
Q Consensus       134 ~~~~~a~~~~~~m~~~  149 (176)
                      |+.++|.+..++|...
T Consensus       319 ~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  319 GDYEKAIQAAEKAFKL  334 (374)
T ss_pred             CCHHHHHHHHHHHhhc
Confidence            7777777777777644

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=94.42  E-value=0.18  Score=23.62  Aligned_cols=28  Identities=18%  Similarity=0.281  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           97 VVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        97 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      ..+++.|...|...|++++|..++++..
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            3567788888888888888888887764

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.41  E-value=1.7  Score=33.06  Aligned_cols=59  Identities=22%  Similarity=0.258  Sum_probs=48.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           66 TILIDAFCKEGRMDDATMMFSKMLEKGPK-ANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        66 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      ..+..++.+.|+.++|.+.|++|.+.... -...+...|++++...+.+.++..++.+-.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            45667778899999999999999865432 245678889999999999999999998853

The molecular function of this protein is uncertain.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.03  E-value=0.48  Score=37.45  Aligned_cols=103  Identities=14%  Similarity=0.133  Sum_probs=63.1

Q ss_pred             HHHHHHHHh-hCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           11 ALKLFGQLT-DRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKML   89 (176)
Q Consensus        11 a~~~~~~~~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   89 (176)
                      -+++.+.+. +.|..-..-+.+--+.-+...|+..+|.++-.+.+    .||-..|-.=+.+++..+++++-+++-+..+
T Consensus       667 Ll~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk  742 (829)
T KOG2280|consen  667 LLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK  742 (829)
T ss_pred             HHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC
Confidence            344444443 23434445555555666667777777776665554    4677777777777777777766555433322


Q ss_pred             hcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           90 EKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        90 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                            ++.-|.-.+.+|.+.|+.++|.+.+-+.
T Consensus       743 ------sPIGy~PFVe~c~~~~n~~EA~KYiprv  770 (829)
T KOG2280|consen  743 ------SPIGYLPFVEACLKQGNKDEAKKYIPRV  770 (829)
T ss_pred             ------CCCCchhHHHHHHhcccHHHHhhhhhcc
Confidence                  3456666777777777777777777654

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.03  E-value=0.45  Score=27.52  Aligned_cols=48  Identities=13%  Similarity=0.033  Sum_probs=32.9

Q ss_pred             ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           42 RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKML   89 (176)
Q Consensus        42 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   89 (176)
                      +.-++.+-++.+......|++....+.+++|.+.+++.-|..+|+-.+
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            445566666666666667777777777777777777777777777665

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=94.02  E-value=0.25  Score=22.05  Aligned_cols=27  Identities=26%  Similarity=0.504  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           99 TYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        99 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +|..+..+|...|++++|+..|++..+
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            445555555555555555555555443

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 ....

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.86  E-value=0.27  Score=21.92  Aligned_cols=27  Identities=19%  Similarity=0.396  Sum_probs=14.1

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHh
Q 030489           29 TYNTIICGYCSLNRLDEAVQLFEKLTC   55 (176)
Q Consensus        29 ~~~~ll~~~~~~~~~~~a~~~~~~m~~   55 (176)
                      +|..+..+|...|++++|+..|++..+
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            445555555555555555555555444

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=93.67  E-value=2.1  Score=31.63  Aligned_cols=30  Identities=20%  Similarity=0.404  Sum_probs=17.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCCC
Q 030489          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIA  133 (176)
Q Consensus       104 ~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  133 (176)
                      ..++.+.|+..++-.+++.+-+...+|+..
T Consensus       270 Aralf~d~~~rKg~~ilE~aWK~ePHP~ia  299 (531)
T COG3898         270 ARALFRDGNLRKGSKILETAWKAEPHPDIA  299 (531)
T ss_pred             HHHHHhccchhhhhhHHHHHHhcCCChHHH
Confidence            345566666666666666666555555443

>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=93.64  E-value=2.1  Score=32.34  Aligned_cols=97  Identities=13%  Similarity=0.111  Sum_probs=45.5

Q ss_pred             hCChhHHHHHHH--HHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            5 ECHLDAALKLFG--QLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         5 ~~~~~~a~~~~~--~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      .|+++++.++.+  ++..   ..+....+.++..+-+.|..+.|+++..+-..            -.....+.|+++.|.
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---NIPKDQGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDIAL  338 (443)
T ss_dssp             TT-HHH-----HHHHTGG---G--HHHHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHHHH
T ss_pred             cCChhhhhhhhhhhhhcc---cCChhHHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHHHH
Confidence            456666655554  2221   11355578888888889988888877644221            123333444444444


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE  122 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  122 (176)
                      ++.++.      .+...|..|.+...+.|+++-|.+.|.+
T Consensus       339 ~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k  372 (443)
T PF04053_consen  339 EIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQK  372 (443)
T ss_dssp             HHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHH
T ss_pred             HHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            433221      1444555555555555555555555544

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.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=93.60  E-value=1.1  Score=28.11  Aligned_cols=110  Identities=15%  Similarity=0.250  Sum_probs=78.4

Q ss_pred             hCChhHHHHHHHHHh--------hCCCCccH--HHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-----CcChhhHHHHH
Q 030489            5 ECHLDAALKLFGQLT--------DRGLEPDI--ITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-----KPNSITFTILI   69 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~--------~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-----~~~~~~~~~ll   69 (176)
                      .|..-..++.|.+..        +.+..++.  ...|.++......+.+...+.+++.+..-..     ..+..+|++++
T Consensus         7 ~g~~~~nL~~w~~fi~~~~~y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if   86 (145)
T PF13762_consen    7 LGNVLANLEVWKTFINSHLPYMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIF   86 (145)
T ss_pred             CcchhhhHHHHHHHHHHHHHHhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHH
Confidence            344444555554433        33444443  4467888888889999999988887743211     23677899999


Q ss_pred             HHHHhcCC-HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH
Q 030489           70 DAFCKEGR-MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK  114 (176)
Q Consensus        70 ~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  114 (176)
                      .+..+..- --.+..+|..|++.+.+++..-|..+|.++.+....+
T Consensus        87 ~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~g~~~~  132 (145)
T PF13762_consen   87 KSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALRGYFHD  132 (145)
T ss_pred             HHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcCCCCc
Confidence            99977666 5567888999998889999999999999987664433

>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=93.52  E-value=1.2  Score=28.39  Aligned_cols=19  Identities=21%  Similarity=0.256  Sum_probs=9.6

Q ss_pred             HHhCCChhHHHHHHHHHHh
Q 030489           37 YCSLNRLDEAVQLFEKLTC   55 (176)
Q Consensus        37 ~~~~~~~~~a~~~~~~m~~   55 (176)
                      +...|+|.+|+.+|+.+..
T Consensus        54 ~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   54 HIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             HHHhCCHHHHHHHHHHHhc
Confidence            3445555555555555443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.33  E-value=3.1  Score=32.53  Aligned_cols=98  Identities=16%  Similarity=0.188  Sum_probs=64.5

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      +.|+++.|.++..+.      .+..-|..|.++..+.+++..|.+.|....         -|..|+..+...|+.+....
T Consensus       649 ~lgrl~iA~~la~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~---------d~~~LlLl~t~~g~~~~l~~  713 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEA------NSEVKWRQLGDAALSAGELPLASECFLRAR---------DLGSLLLLYTSSGNAEGLAV  713 (794)
T ss_pred             hcCcHHHHHHHHHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhc---------chhhhhhhhhhcCChhHHHH
Confidence            445555555554332      256678888888888888888877776543         25667777777777776666


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE  122 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  122 (176)
                      +-....+.|.      .|....+|...|+++++.+++..
T Consensus       714 la~~~~~~g~------~N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  714 LASLAKKQGK------NNLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHhhcc------cchHHHHHHHcCCHHHHHHHHHh
Confidence            6555555543      24455667788888888877754

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=93.33  E-value=1.5  Score=29.72  Aligned_cols=69  Identities=14%  Similarity=0.149  Sum_probs=41.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC--CCCcChhhHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV--QLKPNSITFTILIDA   71 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~   71 (176)
                      +.+.+++.+|+.....-++.. +.+...-..++..++-.|+|++|..-++-.-+-  ...+-..+|..++.+
T Consensus        11 LL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455          11 LLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             HHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            346677777777776666553 335666667777777777777777666554432  223344555555543

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.20  E-value=0.96  Score=26.21  Aligned_cols=48  Identities=4%  Similarity=-0.019  Sum_probs=34.5

Q ss_pred             CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      +.-++.+-+..+...+..|++.+..+.+.+|.+.+++.-|.++++-++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344556666677777777777777777777777777777777777665

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=93.15  E-value=1.6  Score=30.04  Aligned_cols=14  Identities=7%  Similarity=-0.014  Sum_probs=6.4

Q ss_pred             hCChhHHHHHHHHH
Q 030489            5 ECHLDAALKLFGQL   18 (176)
Q Consensus         5 ~~~~~~a~~~~~~~   18 (176)
                      .+++++|-..+...
T Consensus        44 Ak~feKakdcLlkA   57 (308)
T KOG1585|consen   44 AKKFEKAKDCLLKA   57 (308)
T ss_pred             hccHHHHHHHHHHH
Confidence            44455554444433

>PRK11906 transcriptional regulator; Provisional

Probab=92.93  E-value=3.1  Score=31.37  Aligned_cols=111  Identities=15%  Similarity=0.147  Sum_probs=63.3

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHH
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFS   86 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~   86 (176)
                      ...+|.++-+...+.+ +.|......+..+..-.++++.+..+|++....+.. ...+|...--.+.-.|+.++|.+.++
T Consensus       319 ~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~  396 (458)
T PRK11906        319 AAQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICID  396 (458)
T ss_pred             HHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3455666666666665 336777777777777777777888888776665321 33444444445566777888877777


Q ss_pred             HHHhcCCCCcH-HHHHHHHHHHHhcCCHHHHHHHH
Q 030489           87 KMLEKGPKANV-VTYSCLIDGYFKSQNMKSAFDVY  120 (176)
Q Consensus        87 ~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~  120 (176)
                      +..+.++..-. ......++.|+.. ..+.+++++
T Consensus       397 ~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~~~  430 (458)
T PRK11906        397 KSLQLEPRRRKAVVIKECVDMYVPN-PLKNNIKLY  430 (458)
T ss_pred             HHhccCchhhHHHHHHHHHHHHcCC-chhhhHHHH
Confidence            75554332111 2222233455544 344444444

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.75  E-value=0.43  Score=21.07  Aligned_cols=26  Identities=23%  Similarity=0.452  Sum_probs=13.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489          100 YSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus       100 ~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      |..+-..|.+.|++++|++.|++...
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            44445555555555555555555443

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 ....

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.74  E-value=3.8  Score=31.94  Aligned_cols=138  Identities=14%  Similarity=0.115  Sum_probs=65.7

Q ss_pred             hhHHHHHHHHHhhCCCCccHHHHHHHHHH---HHhCCChhHHHHHHHHHHh-------CCCCcChhhHHHHHHHHHhcC-
Q 030489            8 LDAALKLFGQLTDRGLEPDIITYNTIICG---YCSLNRLDEAVQLFEKLTC-------VQLKPNSITFTILIDAFCKEG-   76 (176)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~---~~~~~~~~~a~~~~~~m~~-------~~~~~~~~~~~~ll~~~~~~~-   76 (176)
                      ...|.+.++...+.|.. .....-.++..   +....+.+.|+.+|+...+       .|   +....+.+-.+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~g~~-~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS-EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhcch-HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            34566666666666522 22222222222   3355567777777766655       33   2234444555554432 


Q ss_pred             ----CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCCCCC-------------CChHH
Q 030489           77 ----RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK-SQNMKSAFDVYEEMCENNISPNIA-------------GRPTE  138 (176)
Q Consensus        77 ----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~  138 (176)
                          +.+.|..++....+.|.+ +....-..+.-... ..+...|.++|......|..+-..             .+.+.
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~  382 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLEL  382 (552)
T ss_pred             CccccHHHHHHHHHHHHhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHH
Confidence                455566666666665532 33222222222222 234556666666554444322211             44555


Q ss_pred             HHHHHHHHHHCC
Q 030489          139 AMQLYDSMLRNG  150 (176)
Q Consensus       139 a~~~~~~m~~~g  150 (176)
                      |..++.+.-+.|
T Consensus       383 A~~~~k~aA~~g  394 (552)
T KOG1550|consen  383 AFAYYKKAAEKG  394 (552)
T ss_pred             HHHHHHHHHHcc
Confidence            555555555554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=92.62  E-value=1.1  Score=33.15  Aligned_cols=102  Identities=12%  Similarity=0.040  Sum_probs=70.7

Q ss_pred             hhhCChhHHHHHHHHHhhC---CCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhh---HHHHHHHHHhcC
Q 030489            3 IKECHLDAALKLFGQLTDR---GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSIT---FTILIDAFCKEG   76 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~---~~~ll~~~~~~~   76 (176)
                      .+.|++..|.++|.+.+..   +..|+...|-....+..+.|+..+|+.--+...+.    |...   +..-..++...+
T Consensus       260 fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i----D~syikall~ra~c~l~le  335 (486)
T KOG0550|consen  260 FKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI----DSSYIKALLRRANCHLALE  335 (486)
T ss_pred             hhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc----CHHHHHHHHHHHHHHHHHH
Confidence            4789999999999988765   45667788888888889999999999988877653    3333   223335566778


Q ss_pred             CHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHH
Q 030489           77 RMDDATMMFSKMLEKGPKA-NVVTYSCLIDGYF  108 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~  108 (176)
                      ++++|.+-|++..+..-.+ ...++.....++-
T Consensus       336 ~~e~AV~d~~~a~q~~~s~e~r~~l~~A~~aLk  368 (486)
T KOG0550|consen  336 KWEEAVEDYEKAMQLEKDCEIRRTLREAQLALK  368 (486)
T ss_pred             HHHHHHHHHHHHHhhccccchHHHHHHHHHHHH
Confidence            8999999888876543221 2334444444443

>PRK11906 transcriptional regulator; Provisional

Probab=92.61  E-value=3.5  Score=31.12  Aligned_cols=137  Identities=12%  Similarity=0.115  Sum_probs=92.5

Q ss_pred             ChhHHHHHHHHHhh-CCCCcc-HHHHHHHHHHHHh---------CCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhc
Q 030489            7 HLDAALKLFGQLTD-RGLEPD-IITYNTIICGYCS---------LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE   75 (176)
Q Consensus         7 ~~~~a~~~~~~~~~-~~~~~~-~~~~~~ll~~~~~---------~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   75 (176)
                      ..+.|+.+|.+... +.+.|+ ...|..+..++..         .....+|.++-+...+.+. -|......+..+..-.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~-~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITT-VDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHhh
Confidence            34678889988882 223443 3444433333322         2234566777777776653 3777777777777888


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC--------------CChHHHHH
Q 030489           76 GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA--------------GRPTEAMQ  141 (176)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--------------~~~~~a~~  141 (176)
                      ++++.|...|++....++. ...+|...--...-.|+.++|.+.+++..+.  .|...              ...+.|++
T Consensus       352 ~~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~~~~~~~~~~~~~~~~~~~~~~  428 (458)
T PRK11906        352 GQAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRKAVVIKECVDMYVPNPLKNNIK  428 (458)
T ss_pred             cchhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhHHHHHHHHHHHHcCCchhhhHH
Confidence            8899999999999988654 6677777777778899999999999986543  23322              66677777


Q ss_pred             HHHHHH
Q 030489          142 LYDSML  147 (176)
Q Consensus       142 ~~~~m~  147 (176)
                      ++.+-.
T Consensus       429 ~~~~~~  434 (458)
T PRK11906        429 LYYKET  434 (458)
T ss_pred             HHhhcc
Confidence            765543

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=92.50  E-value=0.52  Score=22.92  Aligned_cols=23  Identities=22%  Similarity=0.505  Sum_probs=11.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 030489           68 LIDAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        68 ll~~~~~~~~~~~a~~~~~~~~~   90 (176)
                      |..+|...|+.+.|.++++++..
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            34455555555555555555543

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.

>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=92.43  E-value=0.45  Score=26.34  Aligned_cols=51  Identities=18%  Similarity=0.137  Sum_probs=28.5

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhCCCCcCh--hhHHHHHHHHHhcCCHHHHHHH
Q 030489           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNS--ITFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus        33 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      .+..| ..++.++|+..|....+.-..|..  .++..++.+|+..|.+++++++
T Consensus        13 GlkLY-~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   13 GLKLY-HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             HHHHh-ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34433 666667777777666554322211  3445566667777776665554

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

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.40  E-value=0.49  Score=20.87  Aligned_cols=26  Identities=31%  Similarity=0.464  Sum_probs=12.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 030489           65 FTILIDAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        65 ~~~ll~~~~~~~~~~~a~~~~~~~~~   90 (176)
                      +..+..++.+.|++++|++.|++..+
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            33444444555555555555554443

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 ....

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=92.38  E-value=1.8  Score=27.24  Aligned_cols=64  Identities=14%  Similarity=0.054  Sum_probs=40.6

Q ss_pred             HHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC
Q 030489           13 KLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR   77 (176)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   77 (176)
                      ++.+.+.+.|.+++..= ..++..+.+.+..-.|.++|+++.+.+...+..|...-++.+...|-
T Consensus         7 ~~~~~lk~~glr~T~qR-~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Gl   70 (145)
T COG0735           7 DAIERLKEAGLRLTPQR-LAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGL   70 (145)
T ss_pred             HHHHHHHHcCCCcCHHH-HHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCC
Confidence            34455566666655432 35666666666667777777777777666666666666666666554

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=92.37  E-value=3.5  Score=30.58  Aligned_cols=117  Identities=13%  Similarity=0.086  Sum_probs=76.6

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHH--HhCCChhHHHHHHHHHHhCCCCcChhh--HHHHHHHHHhcCCHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGY--CSLNRLDEAVQLFEKLTCVQLKPNSIT--FTILIDAFCKEGRMDD   80 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~m~~~~~~~~~~~--~~~ll~~~~~~~~~~~   80 (176)
                      .|+-..|.++-.+..+. +..|-..+..++.+-  .-.|+++.|.+-|+-|...   |....  ...|.-.--+.|..+.
T Consensus        97 AGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~Garea  172 (531)
T COG3898          97 AGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREA  172 (531)
T ss_pred             cCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHH
Confidence            45566666665544322 233444455555543  4578999999999998852   22222  2334444456788888


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      |.++-+..-..-.. -.-.+...++..+..|+|+.|+++.+.-...
T Consensus       173 Ar~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~  217 (531)
T COG3898         173 ARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQRAA  217 (531)
T ss_pred             HHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHHHHH
Confidence            88888877665433 5567888899999999999999999876543

>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=92.27  E-value=2  Score=27.68  Aligned_cols=96  Identities=11%  Similarity=0.191  Sum_probs=54.8

Q ss_pred             HHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC--CHHHHHHHHHHHH
Q 030489           47 VQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ--NMKSAFDVYEEMC  124 (176)
Q Consensus        47 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~m~  124 (176)
                      .++.+.+.+.+++|+...+..+++.+.+.|++....+    +.+.++-+|.......+-.+....  -.+-|+.++.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~q----llq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQ----LLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH----HHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            4556777788999999999999999999999766444    444445555555444443322211  0222333333322


Q ss_pred             -HCCCCCC---CCCChHHHHHHHHHH
Q 030489          125 -ENNISPN---IAGRPTEAMQLYDSM  146 (176)
Q Consensus       125 -~~~~~~~---~~~~~~~a~~~~~~m  146 (176)
                       .......   ..|++-+|+++.++.
T Consensus        90 ~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   90 TAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence             1000000   017778888877765

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=92.12  E-value=1.2  Score=30.20  Aligned_cols=79  Identities=16%  Similarity=0.158  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCCcHHHHHHHHHH
Q 030489           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKG--PKANVVTYSCLIDG  106 (176)
Q Consensus        29 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~  106 (176)
                      |.+.-+..+.+.+...+++....+-.+.+ +.|..+-+.++..++-.|++++|...++-.....  ..+-...|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            34556777889999999999998877764 3366667788999999999999998877665432  23345667777766


Q ss_pred             HH
Q 030489          107 YF  108 (176)
Q Consensus       107 ~~  108 (176)
                      -.
T Consensus        82 ea   83 (273)
T COG4455          82 EA   83 (273)
T ss_pred             HH
Confidence            54

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=92.05  E-value=3.9  Score=30.46  Aligned_cols=126  Identities=13%  Similarity=0.077  Sum_probs=84.8

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHH-------------HHHHHHHHHhCCChhHHHHHHHHHHhC---CCCcChhhHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIIT-------------YNTIICGYCSLNRLDEAVQLFEKLTCV---QLKPNSITFTIL   68 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~-------------~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~l   68 (176)
                      ..+.+.|...|.+-+..+  |+...             +..=.+-..+.|++.+|.+.|.+....   ++.|+...|...
T Consensus       216 ~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nr  293 (486)
T KOG0550|consen  216 NDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNR  293 (486)
T ss_pred             ccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHh
Confidence            445666777777666543  32221             222234456789999999999987764   344556667777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC
Q 030489           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA  133 (176)
Q Consensus        69 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  133 (176)
                      .....+.|+.++|+.--++..+.+.. -+..|..-..++...++|++|.+-++...+....+...
T Consensus       294 a~v~~rLgrl~eaisdc~~Al~iD~s-yikall~ra~c~l~le~~e~AV~d~~~a~q~~~s~e~r  357 (486)
T KOG0550|consen  294 ALVNIRLGRLREAISDCNEALKIDSS-YIKALLRRANCHLALEKWEEAVEDYEKAMQLEKDCEIR  357 (486)
T ss_pred             HhhhcccCCchhhhhhhhhhhhcCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchH
Confidence            77788999999999988887765422 33444455566777899999999999887655544333

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=92.04  E-value=2.9  Score=34.11  Aligned_cols=117  Identities=13%  Similarity=0.080  Sum_probs=72.3

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHH----------HhCCC---------CcChhh
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKL----------TCVQL---------KPNSIT   64 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m----------~~~~~---------~~~~~~   64 (176)
                      ..|++++|+++-+.=..-   .-..||..-...+-..++.+.|++.|+..          .....         ..|...
T Consensus       838 s~g~w~eA~eiAE~~DRi---HLr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L  914 (1416)
T KOG3617|consen  838 SQGMWSEAFEIAETKDRI---HLRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESL  914 (1416)
T ss_pred             hcccHHHHHHHHhhccce---ehhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHH
Confidence            356666666665432211   13356666666666777788888877642          22110         123344


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc--------------------CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           65 FTILIDAFCKEGRMDDATMMFSKMLEK--------------------GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        65 ~~~ll~~~~~~~~~~~a~~~~~~~~~~--------------------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      |.--....-..|+.+.|+.+|....+.                    .-.-|......|...|-..|++.+|..+|.+.
T Consensus       915 ~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  915 YSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESGDKAACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             HHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcccHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            444444455678888888877765442                    11336677788899999999999999998765

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.99  E-value=1.5  Score=25.66  Aligned_cols=47  Identities=4%  Similarity=0.017  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      -+..+-+..+...+..|++.+..+.+.+|.+.+++.-|.++++-++.
T Consensus        27 we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   27 WELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            35677778888888999999999999999999999999999998865

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 ....

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.96  E-value=2.1  Score=29.38  Aligned_cols=16  Identities=19%  Similarity=0.534  Sum_probs=11.0

Q ss_pred             CChHHHHHHHHHHHHC
Q 030489          134 GRPTEAMQLYDSMLRN  149 (176)
Q Consensus       134 ~~~~~a~~~~~~m~~~  149 (176)
                      +++.+|+++|+++-..
T Consensus       168 eqY~~Ai~iyeqva~~  183 (288)
T KOG1586|consen  168 EQYSKAIDIYEQVARS  183 (288)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6677777777776644

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=91.78  E-value=4.5  Score=30.58  Aligned_cols=120  Identities=15%  Similarity=0.175  Sum_probs=78.3

Q ss_pred             hhhCChhHHHHHHHHHhhCCCC-c---c-HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHH--HHhc
Q 030489            3 IKECHLDAALKLFGQLTDRGLE-P---D-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDA--FCKE   75 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~-~---~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~--~~~~   75 (176)
                      -+.+++.+|.++|.++.++.-. |   . ...-+.++++|.. ++.+.....+....+.  .| ...|-.+..+  +.+.
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-NNLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYKQ   92 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHHh
Confidence            3678999999999998765211 1   1 3344577888754 4466666666666654  22 3344445444  4678


Q ss_pred             CCHHHHHHHHHHHHhc--CCCC------------cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           76 GRMDDATMMFSKMLEK--GPKA------------NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        76 ~~~~~a~~~~~~~~~~--~~~~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +.+++|.+.+..-.+.  +..|            |...=++.+.++...|.+.++..++++|...
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~  157 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIER  157 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHH
Confidence            8899998888765543  2111            2222355678889999999999999998653

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=91.69  E-value=1.7  Score=28.55  Aligned_cols=30  Identities=7%  Similarity=-0.123  Sum_probs=15.3

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           95 ANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        95 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      |+..+|..++.++...|+.++|.+...++.
T Consensus       142 P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~  171 (193)
T PF11846_consen  142 PDPNVYQRYALALALLGDPEEARQWLARAR  171 (193)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            455555555555555555555555554443

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.67  E-value=2.6  Score=27.56  Aligned_cols=128  Identities=10%  Similarity=0.101  Sum_probs=85.1

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHH-HHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHH-HHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFT-ILIDAFCKEGRMDDATMMFSKMLEKGPKANVV-TYSCL  103 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l  103 (176)
                      ....|..-+. +++.+..++|+.-|..+.+.|...-+..-. .........|+...|...|+++-.....|-.. -...|
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            4455655555 567888999999999999887653222211 12234578899999999999998765555443 12222


Q ss_pred             --HHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHHHHCCCCCc
Q 030489          104 --IDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSMLRNGIMPD  154 (176)
Q Consensus       104 --~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m~~~g~~p~  154 (176)
                        ...+...|.++.+..-.+-+...+.+.-..            |++..|.+.|.++....-.|.
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~apr  201 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAPR  201 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCcH
Confidence              234567888998887777654332222222            999999999999986544444

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=91.65  E-value=1.5  Score=31.82  Aligned_cols=87  Identities=17%  Similarity=0.129  Sum_probs=49.6

Q ss_pred             HHHHhCCChhHHHHHHHHHHhCCCCc-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 030489           35 CGYCSLNRLDEAVQLFEKLTCVQLKP-NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM  113 (176)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  113 (176)
                      +-|.++|.+++|++.|..-...  .| |.+++..-..+|.+...+..|+.=....+..+- ..+..|..-+.+-...|..
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~-~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDK-LYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhH-HHHHHHHHHHHHHHHHhhH
Confidence            4466777788888877664432  34 667777777777777777766665555544321 1333444444444444555


Q ss_pred             HHHHHHHHHHH
Q 030489          114 KSAFDVYEEMC  124 (176)
Q Consensus       114 ~~a~~~~~~m~  124 (176)
                      .+|.+=++...
T Consensus       182 ~EAKkD~E~vL  192 (536)
T KOG4648|consen  182 MEAKKDCETVL  192 (536)
T ss_pred             HHHHHhHHHHH
Confidence            55544444443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=91.65  E-value=1.9  Score=30.52  Aligned_cols=98  Identities=15%  Similarity=0.128  Sum_probs=63.4

Q ss_pred             ccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 030489           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        25 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      .+...+..++..| +-+-++++.-.|-+=.+... ..-..+++.....|..+|.+.+|.++.+.....+ +.+...|-.+
T Consensus       242 ltide~kelv~~y-kgdyl~e~~y~Waedererle~ly~kllgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~l  319 (361)
T COG3947         242 LTIDELKELVGQY-KGDYLPEADYPWAEDERERLEQLYMKLLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGL  319 (361)
T ss_pred             cCHHHHHHHHHHh-cCCcCCccccccccchHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHH
Confidence            5666777777766 22333332222211111000 1123355666778899999999999999888875 4588888889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHH
Q 030489          104 IDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus       104 ~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      +..+...|+--.+.+-++.+.
T Consensus       320 m~~la~~gD~is~~khyerya  340 (361)
T COG3947         320 MASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHhccchhhhhHHHHHH
Confidence            999999999777777777664

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=91.64  E-value=0.54  Score=22.86  Aligned_cols=25  Identities=24%  Similarity=0.405  Sum_probs=22.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489          102 CLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       102 ~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+..+|...|+.+.|.++++++...
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHc
Confidence            4678999999999999999998854

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.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=91.51  E-value=3.3  Score=31.60  Aligned_cols=88  Identities=10%  Similarity=0.093  Sum_probs=52.8

Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHH
Q 030489           37 YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSA  116 (176)
Q Consensus        37 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  116 (176)
                      ....|+++.+.+.+....+. +.....+...++....+.|+++.|..+-+.|....++ +..........--..|-++++
T Consensus       333 ~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~  410 (831)
T PRK15180        333 FSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKS  410 (831)
T ss_pred             HHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHH
Confidence            45566777776666554433 2234455666677777777777777777777665555 444444444444555666777


Q ss_pred             HHHHHHHHHC
Q 030489          117 FDVYEEMCEN  126 (176)
Q Consensus       117 ~~~~~~m~~~  126 (176)
                      .-.|+++...
T Consensus       411 ~~~wk~~~~~  420 (831)
T PRK15180        411 YHYWKRVLLL  420 (831)
T ss_pred             HHHHHHHhcc
Confidence            7777666543

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=91.47  E-value=0.67  Score=20.49  Aligned_cols=27  Identities=22%  Similarity=0.288  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           99 TYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        99 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +|..+-..|...|++++|...|++..+
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            566667777777777777777776654

...

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=91.41  E-value=5  Score=30.37  Aligned_cols=101  Identities=14%  Similarity=0.125  Sum_probs=66.3

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHH--HHhCCChhHHHHHHHHHHhC--CCCc------------ChhhHHHHHH
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICG--YCSLNRLDEAVQLFEKLTCV--QLKP------------NSITFTILID   70 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~~m~~~--~~~~------------~~~~~~~ll~   70 (176)
                      +.+........+.+..  | ...|-.+..+  +.+.+.+.+|++.+....++  +..|            |-..=+..+.
T Consensus        60 nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~  136 (549)
T PF07079_consen   60 NLDLMEKQLMELRQQF--G-KSAYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAH  136 (549)
T ss_pred             hHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHH
Confidence            4455555555555442  2 2223333333  34889999999999887765  3222            1122255677


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc----CCCCcHHHHHHHHHHHHhc
Q 030489           71 AFCKEGRMDDATMMFSKMLEK----GPKANVVTYSCLIDGYFKS  110 (176)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~  110 (176)
                      ++...|++.++..+++++...    ....+..+|+.++-.+++.
T Consensus       137 sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrS  180 (549)
T PF07079_consen  137 SLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRS  180 (549)
T ss_pred             HHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHH
Confidence            889999999999999888754    3448999999987777654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=91.25  E-value=4.4  Score=30.36  Aligned_cols=148  Identities=12%  Similarity=0.061  Sum_probs=98.8

Q ss_pred             hhCChhHHHHHHHHHh----hCCCCc-cHHHHHHHHHHHHhCCChhHHHHHHHHHHh----CC-CCcChhhHHHHHHHHH
Q 030489            4 KECHLDAALKLFGQLT----DRGLEP-DIITYNTIICGYCSLNRLDEAVQLFEKLTC----VQ-LKPNSITFTILIDAFC   73 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~----~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~~-~~~~~~~~~~ll~~~~   73 (176)
                      -.|+++.|+...+.-.    +.|-+. -...+..+.+++.-.|+++.|.+.|+.-..    .| -.....++.+|-++|.
T Consensus       207 lLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtyt  286 (639)
T KOG1130|consen  207 LLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYT  286 (639)
T ss_pred             eeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHH
Confidence            3578888887765432    334322 346778899999999999999999976432    22 1234566778889998


Q ss_pred             hcCCHHHHHHHHHHHHh----c-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-CCCChHHHHHHHHHHH
Q 030489           74 KEGRMDDATMMFSKMLE----K-GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN-IAGRPTEAMQLYDSML  147 (176)
Q Consensus        74 ~~~~~~~a~~~~~~~~~----~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~~a~~~~~~m~  147 (176)
                      -..++++|+.++..-..    . +..-....|-+|-.+|...|..++|+.+.+.-.+.....+ ..|....-..+.+...
T Consensus       287 ll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~s~ev~D~sgelTar~Nlsdl~~  366 (639)
T KOG1130|consen  287 LLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRSSLEVNDTSGELTARDNLSDLIL  366 (639)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCcchhhhhhhhhHHHHH
Confidence            88999999988765431    1 1222556788899999999999999998886654433332 2344444444555554


Q ss_pred             HCCC
Q 030489          148 RNGI  151 (176)
Q Consensus       148 ~~g~  151 (176)
                      ..|.
T Consensus       367 ~lG~  370 (639)
T KOG1130|consen  367 ELGQ  370 (639)
T ss_pred             HhCC
Confidence            4443

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=91.12  E-value=0.98  Score=23.76  Aligned_cols=47  Identities=21%  Similarity=0.372  Sum_probs=24.4

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHh
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTC   55 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   55 (176)
                      .++...++.+.++..  +-|..-.-.++.++...|++++|.++.+++.+
T Consensus         5 ~~~~~~~~~~~lR~~--RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen    5 QLEELEELIDSLRAQ--RHDFLNHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             -HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            344455555555433  22333344566666666666666666665543

>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=91.04  E-value=0.48  Score=19.87  Aligned_cols=7  Identities=43%  Similarity=0.733  Sum_probs=2.5

Q ss_pred             cCCHHHH
Q 030489           75 EGRMDDA   81 (176)
Q Consensus        75 ~~~~~~a   81 (176)
                      .|++++|
T Consensus        14 ~G~~~eA   20 (26)
T PF07721_consen   14 QGDPDEA   20 (26)
T ss_pred             cCCHHHH
Confidence            3333333

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

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=90.98  E-value=3  Score=27.01  Aligned_cols=145  Identities=20%  Similarity=0.222  Sum_probs=94.8

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHH-HHHhCCChhHHHHHHHHHHhCCC--CcChhhHHHHHHHHHhcCCHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIIC-GYCSLNRLDEAVQLFEKLTCVQL--KPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~-~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      ..+++..+.+.+.........+ ......... .+...|+++.+...+........  ......+......+...++.+.
T Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  185 (291)
T COG0457         107 ALGKYEEALELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEE  185 (291)
T ss_pred             HHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHH
Confidence            3455678888888877654333 222333333 78889999999999988755221  1233344444455677888999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC-C----------CChHHHHHHHHHHHHC
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI-A----------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~----------~~~~~a~~~~~~m~~~  149 (176)
                      +...+..............+..+...+...++++.+...+............ .          +..+.+...+.+....
T Consensus       186 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         186 ALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HHHHHHHHHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999888887643224677888888888888888888888887654332000 0          5677777777776644

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=90.82  E-value=0.72  Score=20.10  Aligned_cols=21  Identities=24%  Similarity=0.556  Sum_probs=9.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 030489           70 DAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~   90 (176)
                      .++.+.|++++|.+.|+++++
T Consensus         8 ~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    8 RCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHH
Confidence            334444444444444444443

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=90.55  E-value=3.5  Score=27.09  Aligned_cols=64  Identities=13%  Similarity=0.170  Sum_probs=34.4

Q ss_pred             hhHHHHHHHHHhhCCCCc--cHHHH-----HHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh
Q 030489            8 LDAALKLFGQLTDRGLEP--DIITY-----NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK   74 (176)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~--~~~~~-----~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   74 (176)
                      ++.|+.+|+.+.+.-..|  -....     ...+-.|.+.|.+++|.+++++..+   .|+......-+....+
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 LESALMVLESIEKEFSLPETLHEEIRKLIKEQAVAVCMENGEFKKAEEVLKRLFS---DPESQKLRMKLLMIIR  155 (200)
T ss_pred             HHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHhc---CCCchhHHHHHHHHHH
Confidence            456777777776553222  11111     2334457777777777777777665   3344444444433333

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.

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=90.36  E-value=0.91  Score=20.05  Aligned_cols=25  Identities=32%  Similarity=0.408  Sum_probs=12.2

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHH
Q 030489           30 YNTIICGYCSLNRLDEAVQLFEKLT   54 (176)
Q Consensus        30 ~~~ll~~~~~~~~~~~a~~~~~~m~   54 (176)
                      |..+...|...|++++|+..|++..
T Consensus         4 ~~~lg~~y~~~~~~~~A~~~~~~a~   28 (34)
T PF13181_consen    4 YYNLGKIYEQLGDYEEALEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4444444555555555555554433

...

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=90.26  E-value=1.3  Score=32.12  Aligned_cols=87  Identities=13%  Similarity=0.087  Sum_probs=56.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCc-cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      |.++|++++|.++|..-...  .| |.+++..-..+|.+..++..|+.=.......+ ..-+-.|..-+.+-...|...+
T Consensus       107 yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~E  183 (536)
T KOG4648|consen  107 YFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNME  183 (536)
T ss_pred             hhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHHH
Confidence            56899999999999887765  44 88888888899999999887765554443321 1112233333344444555666


Q ss_pred             HHHHHHHHHhc
Q 030489           81 ATMMFSKMLEK   91 (176)
Q Consensus        81 a~~~~~~~~~~   91 (176)
                      |.+=++...+.
T Consensus       184 AKkD~E~vL~L  194 (536)
T KOG4648|consen  184 AKKDCETVLAL  194 (536)
T ss_pred             HHHhHHHHHhh
Confidence            66666655554

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=90.26  E-value=8.1  Score=30.82  Aligned_cols=75  Identities=12%  Similarity=-0.044  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---CChHHHHHHHHHHHHCCCCCcH-----------HHHHHHHH
Q 030489           98 VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA---GRPTEAMQLYDSMLRNGIMPDG-----------LLLSTLAD  163 (176)
Q Consensus        98 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---~~~~~a~~~~~~m~~~g~~p~~-----------~~~~~l~~  163 (176)
                      .+.-.+..-+.+...+.-|-++|..|-+..-.....   +++++|..+-++..+.  .||.           .-|..--+
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~gD~ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqk  825 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKMGDLKSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQK  825 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHhccHHHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHH
Confidence            333333344444556666777777664322211111   7777777776665532  3332           13344445


Q ss_pred             HhhcccCcccc
Q 030489          164 YNLQSSGSQEH  174 (176)
Q Consensus       164 ~~~~~g~~~~A  174 (176)
                      +|.+.|+-+||
T Consensus       826 AfhkAGr~~EA  836 (1081)
T KOG1538|consen  826 AFHKAGRQREA  836 (1081)
T ss_pred             HHHHhcchHHH
Confidence            56666665554

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=89.97  E-value=5.2  Score=28.20  Aligned_cols=85  Identities=8%  Similarity=0.006  Sum_probs=60.5

Q ss_pred             CchhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh-----c
Q 030489            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK-----E   75 (176)
Q Consensus         1 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-----~   75 (176)
                      |++.-|+|.+++.-.-+--+.--+....+...-|-.|.+.+.+..+.++-....+..-.-+...|.++...|..     .
T Consensus        92 ALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPL  171 (309)
T PF07163_consen   92 ALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPL  171 (309)
T ss_pred             HHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhcc
Confidence            35567788877776655544322335566666777799999999999999988876444455568887777654     6


Q ss_pred             CCHHHHHHHH
Q 030489           76 GRMDDATMMF   85 (176)
Q Consensus        76 ~~~~~a~~~~   85 (176)
                      |.+++|+++.
T Consensus       172 G~~~eAeelv  181 (309)
T PF07163_consen  172 GHFSEAEELV  181 (309)
T ss_pred             ccHHHHHHHH
Confidence            8999988876

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=89.58  E-value=3.3  Score=25.40  Aligned_cols=45  Identities=13%  Similarity=0.138  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           45 EAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKML   89 (176)
Q Consensus        45 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   89 (176)
                      +..+.++.+....+.|++.....-+.+|.+.+++..|..+|+-++
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK  111 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIK  111 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            344444444444555555555555555555555555555555554

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.50  E-value=4.6  Score=26.86  Aligned_cols=81  Identities=17%  Similarity=0.249  Sum_probs=53.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC----------CChH
Q 030489           70 DAFCKEGRMDDATMMFSKMLEKGPKAN--VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA----------GRPT  137 (176)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----------~~~~  137 (176)
                      ..+...+++++|...++.......+-+  ..+=..|.......|.+++|+..++.....+..+...          |+-+
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill~kg~k~  176 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILLAKGDKQ  176 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHHHcCchH
Confidence            456778888888888887664321111  1222334566677788888888888776654444222          8888


Q ss_pred             HHHHHHHHHHHCC
Q 030489          138 EAMQLYDSMLRNG  150 (176)
Q Consensus       138 ~a~~~~~~m~~~g  150 (176)
                      +|+.-|.+..+.+
T Consensus       177 ~Ar~ay~kAl~~~  189 (207)
T COG2976         177 EARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHHHHcc
Confidence            8888888887664

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.18  E-value=3.2  Score=33.16  Aligned_cols=99  Identities=16%  Similarity=0.237  Sum_probs=61.8

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      -|+..+|.++-.+.+    .|+...|-.=+.+++..++|++-+++-+.+.      ++--|.-...+|.+.|+.++|.++
T Consensus       697 ~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KY  766 (829)
T KOG2280|consen  697 IGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKY  766 (829)
T ss_pred             ccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhh
Confidence            355555555544443    4577777777777777777777666554433      234455667777777777777777


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 030489           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE  122 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  122 (176)
                      +-....         +.-...+|.+.|++.+|.++--+
T Consensus       767 iprv~~---------l~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  767 IPRVGG---------LQEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             hhccCC---------hHHHHHHHHHhccHHHHHHHHHH
Confidence            654321         11566777777777777665543

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=88.91  E-value=4.1  Score=28.97  Aligned_cols=63  Identities=8%  Similarity=0.020  Sum_probs=38.5

Q ss_pred             cChhhHHHHHHHH----HhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           60 PNSITFTILIDAF----CKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        60 ~~~~~~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+...+.-++..|    .....+..|...=+.+.+.    -..+++.....|...|.+.+|.++-+.....
T Consensus       242 ltide~kelv~~ykgdyl~e~~y~Waedererle~l----y~kllgkva~~yle~g~~neAi~l~qr~ltl  308 (361)
T COG3947         242 LTIDELKELVGQYKGDYLPEADYPWAEDERERLEQL----YMKLLGKVARAYLEAGKPNEAIQLHQRALTL  308 (361)
T ss_pred             cCHHHHHHHHHHhcCCcCCccccccccchHHHHHHH----HHHHHHHHHHHHHHcCChHHHHHHHHHHhhc
Confidence            3555566666655    2333444444333333221    3446677778899999999999988877654

>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=88.74  E-value=6.5  Score=27.63  Aligned_cols=94  Identities=7%  Similarity=0.105  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHHhCCChh---HHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHH
Q 030489           28 ITYNTIICGYCSLNRLD---EAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~---~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (176)
                      .++..++.+|...+..+   +|..+++.+.+.... .+.++..-+..+.+.++.+.+.+.+.+|+.. +......+..++
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~-~~~~e~~~~~~l  162 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS-VDHSESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh-cccccchHHHHH
Confidence            56778888888877654   566677777554222 3556666677887799999999999999876 332445555555


Q ss_pred             HHH---HhcCCHHHHHHHHHHHH
Q 030489          105 DGY---FKSQNMKSAFDVYEEMC  124 (176)
Q Consensus       105 ~~~---~~~g~~~~a~~~~~~m~  124 (176)
                      ..+   .... ...+...+..+.
T Consensus       163 ~~i~~l~~~~-~~~a~~~ld~~l  184 (278)
T PF08631_consen  163 HHIKQLAEKS-PELAAFCLDYLL  184 (278)
T ss_pred             HHHHHHHhhC-cHHHHHHHHHHH
Confidence            555   3332 334444554443

It is also involved in sporulation [].

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=88.17  E-value=4.7  Score=25.33  Aligned_cols=64  Identities=13%  Similarity=0.157  Sum_probs=48.4

Q ss_pred             HHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC
Q 030489           48 QLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN  112 (176)
Q Consensus        48 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  112 (176)
                      ++.+.+.+.|.+++..= ..++..+...+..-.|.++++++.+.++..+..|-..-++.+...|-
T Consensus         7 ~~~~~lk~~glr~T~qR-~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Gl   70 (145)
T COG0735           7 DAIERLKEAGLRLTPQR-LAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGL   70 (145)
T ss_pred             HHHHHHHHcCCCcCHHH-HHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCC
Confidence            34556677788766543 45677788787779999999999999888888887777777777764

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=88.14  E-value=3.8  Score=25.17  Aligned_cols=46  Identities=4%  Similarity=0.127  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +..+.+..+...++.|++.+...-+.++.+.+|+..|.++|+-++.
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~  112 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKD  112 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            4556677777888999999999999999999999999999998764

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=88.13  E-value=5.2  Score=25.82  Aligned_cols=121  Identities=19%  Similarity=0.183  Sum_probs=59.3

Q ss_pred             hCChhHHHHHHHHHhhC-CCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHH-HHHhcCCHHHHH
Q 030489            5 ECHLDAALKLFGQLTDR-GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILID-AFCKEGRMDDAT   82 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~-~~~~~~~~~~a~   82 (176)
                      .+.+..+...+...... ........+......+...+.+..+...+.........+ ......... .+...|+++.|.
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~  150 (291)
T COG0457          72 LGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALGALYELGDYEEAL  150 (291)
T ss_pred             cccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHH
Confidence            34455555555444431 123344555555555556666666666666655432222 111222222 566666666666


Q ss_pred             HHHHHHHhcCC--CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           83 MMFSKMLEKGP--KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        83 ~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      ..+++......  ......+......+...++++.+...+......
T Consensus       151 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  196 (291)
T COG0457         151 ELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL  196 (291)
T ss_pred             HHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh
Confidence            66666544221  112333333333455566666666666665543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.97  E-value=4.1  Score=33.06  Aligned_cols=78  Identities=23%  Similarity=0.295  Sum_probs=54.9

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      .+.|++++|...|-+-... +.|.     .++.-|....+..+-..+++.+.+.|+. +..--+.|+.+|.+.++.++..
T Consensus       379 y~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~  451 (933)
T KOG2114|consen  379 YGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLT  451 (933)
T ss_pred             HhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHH
Confidence            4678888888888665543 2222     3455567777777888888888888876 5555677889999988887766


Q ss_pred             HHHHH
Q 030489           83 MMFSK   87 (176)
Q Consensus        83 ~~~~~   87 (176)
                      ++.+.
T Consensus       452 efI~~  456 (933)
T KOG2114|consen  452 EFISK  456 (933)
T ss_pred             HHHhc
Confidence            55443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=87.95  E-value=5  Score=25.39  Aligned_cols=52  Identities=15%  Similarity=0.277  Sum_probs=25.2

Q ss_pred             hCCChhHHHHHHHHHHhCCCCcChhhHHHH-HHHHHhcCCHHHHHHHHHHHHhcC
Q 030489           39 SLNRLDEAVQLFEKLTCVQLKPNSITFTIL-IDAFCKEGRMDDATMMFSKMLEKG   92 (176)
Q Consensus        39 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~   92 (176)
                      ..++.+++..++.-|.--  .|+..-...+ .-.+...|++++|..+|+++.+.+
T Consensus        22 ~~~d~~D~e~lLdALrvL--rP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVL--RPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHHh--CCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            355566666666555532  2222222111 122355566666666666665543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=87.91  E-value=5.2  Score=27.00  Aligned_cols=67  Identities=7%  Similarity=0.003  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHhcCCC----CcH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHH
Q 030489           78 MDDATMMFSKMLEKGPK----ANV-VTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYD  144 (176)
Q Consensus        78 ~~~a~~~~~~~~~~~~~----~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~  144 (176)
                      ...|.+.|++.......    .+. ...-.+.....+.|++++|.+.|..+...+-......-.+.|.+.++
T Consensus       141 l~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~s~~~~l~~~AR~~w~  212 (214)
T PF09986_consen  141 LRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKASKEPKLKDMARDQWQ  212 (214)
T ss_pred             HHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCCCCcHHHHHHHHHHHH
Confidence            34566666665543222    122 23334556777889999999999998775544443333444554444

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=87.85  E-value=6.4  Score=26.50  Aligned_cols=93  Identities=15%  Similarity=0.130  Sum_probs=63.3

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhCCCCcChh----hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 030489           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSI----TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK  109 (176)
Q Consensus        34 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  109 (176)
                      .+-+.+.|++++|..-|......-......    .|..-..++.+.+.++.|+.-....++.++. .....-.-..+|-+
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek  180 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEK  180 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHh
Confidence            344678889999999888877652221111    2222334567788888888888888777643 44444455678888


Q ss_pred             cCCHHHHHHHHHHHHHCC
Q 030489          110 SQNMKSAFDVYEEMCENN  127 (176)
Q Consensus       110 ~g~~~~a~~~~~~m~~~~  127 (176)
                      ...++.|+.=|+++.+..
T Consensus       181 ~ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILESD  198 (271)
T ss_pred             hhhHHHHHHHHHHHHHhC
Confidence            888999998888887653

>PRK11639 zinc uptake transcriptional repressor; Provisional

Probab=87.76  E-value=5.6  Score=25.72  Aligned_cols=61  Identities=11%  Similarity=0.055  Sum_probs=40.5

Q ss_pred             HhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHH
Q 030489           18 LTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD   79 (176)
Q Consensus        18 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   79 (176)
                      +.+.|++++..=. .++..+....+.-.|.++++.+.+.+..++..|....|..+...|-+.
T Consensus        17 L~~~GlR~T~qR~-~IL~~l~~~~~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e~Glv~   77 (169)
T PRK11639         17 CAQRNVRLTPQRL-EVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVH   77 (169)
T ss_pred             HHHcCCCCCHHHH-HHHHHHHhcCCCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHHCCCEE
Confidence            4556666554433 455555555667778888888887777777777777777777776554

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=87.66  E-value=2.2  Score=21.06  Aligned_cols=31  Identities=10%  Similarity=0.183  Sum_probs=14.1

Q ss_pred             hCCChhHHHHHHHHHHhCCCCcChhhHHHHH
Q 030489           39 SLNRLDEAVQLFEKLTCVQLKPNSITFTILI   69 (176)
Q Consensus        39 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll   69 (176)
                      +.|-..++..+++.|.+.|+..+...+..++
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            3444444444444444444444444444333

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.32  E-value=6.7  Score=26.12  Aligned_cols=90  Identities=14%  Similarity=0.122  Sum_probs=67.6

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHH-----HHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 030489           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI-----LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        33 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-----ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (176)
                      +...+...|++++|+.-+++....   |....+..     |.+.....|.+++|..+++...+.+.  .......--+.+
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDil  169 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDIL  169 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHH
Confidence            445578899999999999887753   33333433     44567788999999999998876653  333444556889


Q ss_pred             HhcCCHHHHHHHHHHHHHCC
Q 030489          108 FKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus       108 ~~~g~~~~a~~~~~~m~~~~  127 (176)
                      ...|+-++|..-|++..+.+
T Consensus       170 l~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         170 LAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHcCchHHHHHHHHHHHHcc
Confidence            99999999999999988765

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=86.43  E-value=2.7  Score=20.76  Aligned_cols=38  Identities=5%  Similarity=0.139  Sum_probs=30.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 030489           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (176)
Q Consensus        69 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (176)
                      +....+.|-..++...++.|.+.|+..+...|..++..
T Consensus         9 L~~Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~   46 (48)
T PF11848_consen    9 LLLAKRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR   46 (48)
T ss_pred             HHHHHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence            34456678888999999999999999888888877653

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=86.00  E-value=7.7  Score=25.53  Aligned_cols=57  Identities=9%  Similarity=-0.032  Sum_probs=42.1

Q ss_pred             HHHhCCChhHHHHHHHHHHhC-CCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 030489           36 GYCSLNRLDEAVQLFEKLTCV-QLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKG   92 (176)
Q Consensus        36 ~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   92 (176)
                      ......+.+......+...+. ...|++.+|..++.++...|+.++|.++.+++...-
T Consensus       117 ~~~~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~ly  174 (193)
T PF11846_consen  117 LARLPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARRLY  174 (193)
T ss_pred             hhcCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            333555555555555444433 457899999999999999999999999999988763

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=85.96  E-value=5.2  Score=23.52  Aligned_cols=50  Identities=8%  Similarity=0.067  Sum_probs=25.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           70 DAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +.+...|++++|..+.+.+    +.||...|-.|-..  +.|..++...-+.+|..
T Consensus        47 sSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce~--rlGl~s~l~~rl~rla~   96 (115)
T TIGR02508        47 SSLMNRGDYQSALQLGNKL----CYPDLEPWLALCEW--RLGLGSALESRLNRLAA   96 (115)
T ss_pred             HHHHccchHHHHHHhcCCC----CCchHHHHHHHHHH--hhccHHHHHHHHHHHHh
Confidence            4455566666666555544    35566665554433  34444444444444433

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.

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=85.91  E-value=4.6  Score=22.93  Aligned_cols=65  Identities=11%  Similarity=0.073  Sum_probs=38.3

Q ss_pred             HHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHH
Q 030489           46 AVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSA  116 (176)
Q Consensus        46 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  116 (176)
                      +-+++..+.+.|+- +......+-.+-...|+.+.|.+++..+. .|    +..|..++.++...|.-.-|
T Consensus        21 ~~~v~d~ll~~~il-T~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg----~~aF~~Fl~aLreT~~~~LA   85 (88)
T cd08819          21 TRDVCDKCLEQGLL-TEEDRNRIEAATENHGNESGARELLKRIV-QK----EGWFSKFLQALRETEHHELA   85 (88)
T ss_pred             HHHHHHHHHhcCCC-CHHHHHHHHHhccccCcHHHHHHHHHHhc-cC----CcHHHHHHHHHHHcCchhhh
Confidence            44566666666543 44444444333345677777777777776 43    23677777777776665444

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

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=85.76  E-value=2.9  Score=29.69  Aligned_cols=43  Identities=19%  Similarity=0.291  Sum_probs=29.6

Q ss_pred             cChhh-HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHH
Q 030489           60 PNSIT-FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSC  102 (176)
Q Consensus        60 ~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  102 (176)
                      ||..+ |+..|....+.|++++|++++++..+.|+.--..+|-.
T Consensus       254 ~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFik  297 (303)
T PRK10564        254 NDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFIS  297 (303)
T ss_pred             chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHHH
Confidence            44443 45778888888888888888888888877644444433

>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=85.54  E-value=4.5  Score=22.49  Aligned_cols=48  Identities=15%  Similarity=0.137  Sum_probs=37.0

Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCc--HHHHHHHHHHHHhcCCHHHHHHHHH
Q 030489           74 KEGRMDDATMMFSKMLEKGPKAN--VVTYSCLIDGYFKSQNMKSAFDVYE  121 (176)
Q Consensus        74 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~  121 (176)
                      ..++.++|+..|....+.-..+.  -.++..++.+|+..|++.+++++--
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA~   67 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFAL   67 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67788999999998886644432  2457778899999999999887654

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

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.35  E-value=12  Score=27.33  Aligned_cols=119  Identities=8%  Similarity=0.064  Sum_probs=69.1

Q ss_pred             hhhCChhHHHHHHHHHhhC-CCCccHHHHHHHHH--HHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHH
Q 030489            3 IKECHLDAALKLFGQLTDR-GLEPDIITYNTIIC--GYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD   79 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~--~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   79 (176)
                      .-.|+.+.-...++++... +......+|-.=|.  ++...|-+++|++.-++..+.+ +.|.-.-++....+--.|+..
T Consensus       148 fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~K  226 (491)
T KOG2610|consen  148 FYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHK  226 (491)
T ss_pred             HhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhh
Confidence            3456666666666666532 33333344443333  3457888888888887777654 235566666777777778888


Q ss_pred             HHHHHHHHHHhc---CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 030489           80 DATMMFSKMLEK---GPKANVVTYSCLIDGYFKSQNMKSAFDVYEE  122 (176)
Q Consensus        80 ~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  122 (176)
                      ++.++..+-...   +--.-..-|=+..-.+...+.++.|+++|+.
T Consensus       227 eg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  227 EGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             hHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            887776654321   1111112233334445666788888888874

>smart00028 TPR Tetratricopeptide repeats

Probab=85.23  E-value=1.9  Score=17.76  Aligned_cols=26  Identities=23%  Similarity=0.361  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           99 TYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        99 ~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      +|..+...+...|+++.|...++...
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~   28 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKAL   28 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            34445555555555555555555543

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.

>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known

Probab=85.20  E-value=5  Score=28.44  Aligned_cols=100  Identities=12%  Similarity=0.040  Sum_probs=58.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------CChHHHHH
Q 030489           69 IDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------GRPTEAMQ  141 (176)
Q Consensus        69 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------~~~~~a~~  141 (176)
                      +....+.++.....+.+..+.      ....-...+..+...|+|..|+++..+..+.--.....       .++++...
T Consensus       105 l~~~rkr~~l~~ll~~L~~i~------~v~~~~~~l~~ll~~~dy~~Al~li~~~~~~l~~l~~~~c~~~L~~~L~e~~~  178 (291)
T PF10475_consen  105 LRLQRKRQNLKKLLEKLEQIK------TVQQTQSRLQELLEEGDYPGALDLIEECQQLLEELKGYSCVRHLSSQLQETLE  178 (291)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcccchHHHHHhHHHHHHHH
Confidence            344444445555555554443      33444556777788999999999998775421111111       33344444


Q ss_pred             HHHHHHHC-----CCCCcHHHHHHHHHHhhcccCcccc
Q 030489          142 LYDSMLRN-----GIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       142 ~~~~m~~~-----g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ....+.+.     -...|+..|..++.+|...|+.+.+
T Consensus       179 ~i~~~ld~~l~~~~~~Fd~~~Y~~v~~AY~lLgk~~~~  216 (291)
T PF10475_consen  179 LIEEQLDSDLSKVCQDFDPDKYSKVQEAYQLLGKTQSA  216 (291)
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhhHHH
Confidence            33333321     1156889999999999999876543

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=85.19  E-value=16  Score=28.57  Aligned_cols=162  Identities=14%  Similarity=0.080  Sum_probs=99.5

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHH-HhcCCHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAF-CKEGRMDDAT   82 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~-~~~~~~~~a~   82 (176)
                      +.|+++.+.-+|++..-- +..-...|-..++-....|+.+-|..++....+.-++ +......+=..+ -..|+...|.
T Consensus       309 ~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k-~~~~i~L~~a~f~e~~~n~~~A~  386 (577)
T KOG1258|consen  309 TLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVK-KTPIIHLLEARFEESNGNFDDAK  386 (577)
T ss_pred             hcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCC-CCcHHHHHHHHHHHhhccHHHHH
Confidence            456677777777665532 2224455666666666668888877777665544332 222222222223 3457999999


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHH---HHHHHHHHCCCCCCCC---------------CChHHHHHHHH
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAF---DVYEEMCENNISPNIA---------------GRPTEAMQLYD  144 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~---~~~~~m~~~~~~~~~~---------------~~~~~a~~~~~  144 (176)
                      .+++.+.+.- +--+..-..-+....+.|+.+.+.   +++.........+...               ++.+.|..++.
T Consensus       387 ~~lq~i~~e~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~  465 (577)
T KOG1258|consen  387 VILQRIESEY-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYKIREDADLARIILL  465 (577)
T ss_pred             HHHHHHHhhC-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            9999988763 323333444466667788888887   4444443332222222               89999999999


Q ss_pred             HHHHCCCCCcHHHHHHHHHHhhccc
Q 030489          145 SMLRNGIMPDGLLLSTLADYNLQSS  169 (176)
Q Consensus       145 ~m~~~g~~p~~~~~~~l~~~~~~~g  169 (176)
                      ++.+. ..++...|..++..+...+
T Consensus       466 ~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  466 EANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             Hhhhc-CCccHHHHHHHHHHHHhCC
Confidence            99864 4566677777777666555

>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators

Probab=85.02  E-value=4.1  Score=24.20  Aligned_cols=46  Identities=13%  Similarity=0.058  Sum_probs=26.6

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCH
Q 030489           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (176)
Q Consensus        33 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   78 (176)
                      ++..+...+..-.|.++++.+.+.+..++..|....++.+...|-+
T Consensus         6 Il~~l~~~~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli   51 (116)
T cd07153           6 ILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLV   51 (116)
T ss_pred             HHHHHHhCCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCE
Confidence            4444444455556666666666665555666666566666655544

Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=84.97  E-value=16  Score=28.87  Aligned_cols=100  Identities=12%  Similarity=0.018  Sum_probs=58.8

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      .|+.-.|..++.......+.-..+..-.|.....+.|....|-.++.+..... ...+-++..+-+++....++++|++.
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            45566666666655543222233334445555556666666777776655544 23455666667777777778888888


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHH
Q 030489           85 FSKMLEKGPKANVVTYSCLIDG  106 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~  106 (176)
                      |++..+.... +...-+.|...
T Consensus       699 ~~~a~~~~~~-~~~~~~~l~~i  719 (886)
T KOG4507|consen  699 FRQALKLTTK-CPECENSLKLI  719 (886)
T ss_pred             HHHHHhcCCC-ChhhHHHHHHH
Confidence            8777766543 55555555443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=84.73  E-value=12  Score=26.65  Aligned_cols=134  Identities=15%  Similarity=0.146  Sum_probs=81.0

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC
Q 030489           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN  112 (176)
Q Consensus        33 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  112 (176)
                      -.......|++.+|...|+........ +...--.+..+|...|+.+.|..++..+-..--.........-|..+.+...
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            334467899999999999988776433 4566677889999999999999999987643222222222223444444444


Q ss_pred             HHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHC-CCCCcHHHHHHHHHHhhcccC
Q 030489          113 MKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRN-GIMPDGLLLSTLADYNLQSSG  170 (176)
Q Consensus       113 ~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~-g~~p~~~~~~~l~~~~~~~g~  170 (176)
                      ..+...+-.+...   .|+..             |+.+.|++.+-.+... .-.-|...-..++..+.--|.
T Consensus       219 ~~~~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~  287 (304)
T COG3118         219 TPEIQDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGP  287 (304)
T ss_pred             CCCHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCC
Confidence            4333333333332   23332             8889998877665532 122344555566665555553

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=84.55  E-value=18  Score=28.43  Aligned_cols=121  Identities=14%  Similarity=0.078  Sum_probs=78.4

Q ss_pred             chhhCChhHHHHHHHHHhh-------CCCCccHHHHHHHHHHHHhCC-----ChhHHHHHHHHHHhCCCCcChhhHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTD-------RGLEPDIITYNTIICGYCSLN-----RLDEAVQLFEKLTCVQLKPNSITFTILI   69 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~ll~~~~~~~-----~~~~a~~~~~~m~~~~~~~~~~~~~~ll   69 (176)
                      ++..++++.|+.+|+...+       .|   .....+.+..+|.+..     +...|+.+|......|.+ +...+-..+
T Consensus       259 ~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~  334 (552)
T KOG1550|consen  259 YGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGNP-DAQYLLGVL  334 (552)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCCc-hHHHHHHHH
Confidence            4567789999999998877       44   3345666777776643     567799999888877643 433333222


Q ss_pred             HHHHh-cCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH--hcCCHHHHHHHHHHHHHCC
Q 030489           70 DAFCK-EGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYF--KSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus        70 ~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g~~~~a~~~~~~m~~~~  127 (176)
                      --... ..+...|.++|....+.|.. ...-+-.++....  -..+...|..++++..+.|
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g  394 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVERNLELAFAYYKKAAEKG  394 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc
Confidence            22222 34678999999999888743 3333333333222  3357888888888888777

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=84.51  E-value=11  Score=25.87  Aligned_cols=52  Identities=17%  Similarity=0.148  Sum_probs=32.3

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHH
Q 030489           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSML  147 (176)
Q Consensus        96 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~  147 (176)
                      -..+||.+---+...|+++.|.+.|+...+.+...+..           |++..|.+-|.+.-
T Consensus        98 m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fY  160 (297)
T COG4785          98 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFY  160 (297)
T ss_pred             cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHHH
Confidence            34567777777777788888888777776544333322           66666665554444

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=84.47  E-value=8.1  Score=24.49  Aligned_cols=67  Identities=15%  Similarity=0.004  Sum_probs=45.1

Q ss_pred             hhHHHHHHH---HHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 030489           63 ITFTILIDA---FCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP  130 (176)
Q Consensus        63 ~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  130 (176)
                      .+.+.|+..   -...++++.+..+++-|.-..+. ....-..-.-.+...|+|.+|.++|+++.+.+..+
T Consensus         8 ~iv~gLi~~~~~aL~~~d~~D~e~lLdALrvLrP~-~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~   77 (153)
T TIGR02561         8 RLLGGLIEVLMYALRSADPYDAQAMLDALRVLRPN-LKELDMFDGWLLIARGNYDEAARILRELLSSAGAP   77 (153)
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-ccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCc
Confidence            344444443   34588999999999998865332 22222223445678999999999999998776543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=84.46  E-value=5.6  Score=22.61  Aligned_cols=68  Identities=13%  Similarity=0.103  Sum_probs=51.8

Q ss_pred             HHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489           10 AALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus        10 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      .+.++++.+.+.|+- +..-...+-.+-...|+.+.|.+++..+. +|    +..|...++++...|.-+-|.+
T Consensus        20 ~~~~v~d~ll~~~il-T~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg----~~aF~~Fl~aLreT~~~~LA~e   87 (88)
T cd08819          20 KTRDVCDKCLEQGLL-TEEDRNRIEAATENHGNESGARELLKRIV-QK----EGWFSKFLQALRETEHHELARE   87 (88)
T ss_pred             hHHHHHHHHHhcCCC-CHHHHHHHHHhccccCcHHHHHHHHHHhc-cC----CcHHHHHHHHHHHcCchhhhhc
Confidence            356788888888844 66666666666667899999999999998 54    3478888999988887665543

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

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=84.42  E-value=4.4  Score=25.48  Aligned_cols=55  Identities=16%  Similarity=0.138  Sum_probs=45.9

Q ss_pred             ccHHHHHHHHHHHHhCCC-hhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHH
Q 030489           25 PDIITYNTIICGYCSLNR-LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD   79 (176)
Q Consensus        25 ~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   79 (176)
                      .+..+|+.++.+..+... ---+..+|+.|++.+..+++.-|..+++++.+-...+
T Consensus        77 ~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~g~~~~  132 (145)
T PF13762_consen   77 LDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALRGYFHD  132 (145)
T ss_pred             cccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcCCCCc
Confidence            467889999999987777 6677889999999889999999999999987764433

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=83.80  E-value=10  Score=28.01  Aligned_cols=119  Identities=18%  Similarity=0.211  Sum_probs=76.8

Q ss_pred             hhCChhHHHHHHHHHhhC----C-CCccHHHHHHHHHHHHhCCChhHHHHHHHHHHh----CCCCcChhh-HH-----HH
Q 030489            4 KECHLDAALKLFGQLTDR----G-LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTC----VQLKPNSIT-FT-----IL   68 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~~-~~-----~l   68 (176)
                      ..+.++++++.|+...+-    + ......++-.|-..|.+..++++|.-+......    .++. |... |.     .+
T Consensus       134 gls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~-d~~~kyr~~~lyhm  212 (518)
T KOG1941|consen  134 GLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLK-DWSLKYRAMSLYHM  212 (518)
T ss_pred             hHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcC-chhHHHHHHHHHHH
Confidence            346788888888876543    1 122457788999999999999998776655432    2332 3322 22     23


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh----cCCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           69 IDAFCKEGRMDDATMMFSKMLE----KGPK-ANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        69 l~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      .-++...|++..|.+.-++..+    .|-. ........+.+.|...|+.+.|+.-|++.
T Consensus       213 aValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  213 AVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            4456778888888877776543    3322 12334456778888999988888777754

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=83.73  E-value=4  Score=29.00  Aligned_cols=45  Identities=18%  Similarity=0.213  Sum_probs=35.8

Q ss_pred             ccH-HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHH
Q 030489           25 PDI-ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILI   69 (176)
Q Consensus        25 ~~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll   69 (176)
                      |+. .-|+..|..-.+.|++++|++++++.++.|+.--..+|-.-+
T Consensus       254 ~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFik~V  299 (303)
T PRK10564        254 NDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFISSV  299 (303)
T ss_pred             chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHHHHh
Confidence            444 446699999999999999999999999999876555554433

>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins

Probab=83.56  E-value=3.4  Score=24.81  Aligned_cols=46  Identities=15%  Similarity=0.052  Sum_probs=28.2

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC
Q 030489           32 TIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR   77 (176)
Q Consensus        32 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   77 (176)
                      .++......+..-.|.++++.+.+.+...+..|...-++.+.+.|-
T Consensus        12 ~Il~~l~~~~~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gl   57 (120)
T PF01475_consen   12 AILELLKESPEHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGL   57 (120)
T ss_dssp             HHHHHHHHHSSSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHcCCCCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCe
Confidence            4555555655666777777777766666666666666666666554

These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_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=83.23  E-value=2.1  Score=26.50  Aligned_cols=29  Identities=34%  Similarity=0.631  Sum_probs=17.7

Q ss_pred             CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 030489           76 GRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (176)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (176)
                      |.-..|-.+|+.|.+.|-+||  .|+.|+..
T Consensus       109 gsk~DaY~VF~kML~~G~pPd--dW~~Ll~~  137 (140)
T PF11663_consen  109 GSKTDAYAVFRKMLERGNPPD--DWDALLKE  137 (140)
T ss_pred             ccCCcHHHHHHHHHhCCCCCc--cHHHHHHH
Confidence            444455666777777776655  56666554

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 [].

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=82.67  E-value=20  Score=27.68  Aligned_cols=111  Identities=18%  Similarity=0.143  Sum_probs=77.6

Q ss_pred             HHHHhCCChhHH-HHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 030489           35 CGYCSLNRLDEA-VQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM  113 (176)
Q Consensus        35 ~~~~~~~~~~~a-~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  113 (176)
                      .--...|+.-.| .+++.-+....-.|+.....  ...+...|.++++.+.+...... +-....+-.+++....+.|+|
T Consensus       297 ~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~--~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~  373 (831)
T PRK15180        297 TKQLADGDIIAASQQLFAALRNQQQDPVLIQLR--SVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARW  373 (831)
T ss_pred             HHHhhccCHHHHHHHHHHHHHhCCCCchhhHHH--HHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhH
Confidence            334456666555 44555555544445544433  33456779999999988776544 334667889999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHH
Q 030489          114 KSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLR  148 (176)
Q Consensus       114 ~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~  148 (176)
                      ++|..+-.-|....+.....           |-+++++..|.++..
T Consensus       374 ~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~  419 (831)
T PRK15180        374 REALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLL  419 (831)
T ss_pred             HHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhc
Confidence            99999999998777665544           778888888887763

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=82.66  E-value=5.3  Score=20.97  Aligned_cols=24  Identities=17%  Similarity=0.181  Sum_probs=13.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHH
Q 030489          100 YSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus       100 ~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      --.+|.+|...|++++|.+.++++
T Consensus        26 hLqvI~gllqlg~~~~a~eYi~~~   49 (62)
T PF14689_consen   26 HLQVIYGLLQLGKYEEAKEYIKEL   49 (62)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHH
Confidence            334455666666666666655554

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=82.64  E-value=12  Score=25.21  Aligned_cols=89  Identities=16%  Similarity=0.213  Sum_probs=63.5

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccH-----HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDI-----ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR   77 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   77 (176)
                      .+.|++++|.+-|....+.- ++..     ..|..-..++.+.+.++.|+.-.....+.+.. .....-.-..+|-+...
T Consensus       106 F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  106 FKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKMEK  183 (271)
T ss_pred             hhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhhhh
Confidence            46799999999999998873 3322     34445556778899999999888777765422 22222233457888899


Q ss_pred             HHHHHHHHHHHHhcCC
Q 030489           78 MDDATMMFSKMLEKGP   93 (176)
Q Consensus        78 ~~~a~~~~~~~~~~~~   93 (176)
                      ++.|++=|.++.+..+
T Consensus       184 ~eealeDyKki~E~dP  199 (271)
T KOG4234|consen  184 YEEALEDYKKILESDP  199 (271)
T ss_pred             HHHHHHHHHHHHHhCc
Confidence            9999999999988753

>KOG4567 consensus GTPase-activating protein [General function prediction only]

Probab=82.46  E-value=16  Score=26.34  Aligned_cols=71  Identities=11%  Similarity=0.228  Sum_probs=48.2

Q ss_pred             HHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----------cCCHHHH
Q 030489           47 VQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----------SQNMKSA  116 (176)
Q Consensus        47 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----------~g~~~~a  116 (176)
                      .++|+.|.+.++.|.-..|.-+.-.+.+.=.+..++.+|+.+...     ..-|..|+..|+.          .|++...
T Consensus       263 ~EL~~~L~~~~i~PqfyaFRWitLLLsQEF~lpDvi~lWDsl~sD-----~~rfd~Ll~iCcsmlil~Re~il~~DF~~n  337 (370)
T KOG4567|consen  263 EELWRHLEEKEIHPQFYAFRWITLLLSQEFPLPDVIRLWDSLLSD-----PQRFDFLLYICCSMLILVRERILEGDFTVN  337 (370)
T ss_pred             HHHHHHHHhcCCCccchhHHHHHHHHhccCCchhHHHHHHHHhcC-----hhhhHHHHHHHHHHHHHHHHHHHhcchHHH
Confidence            457777777778887777777777777777777788888877643     2225555555543          4778777


Q ss_pred             HHHHHH
Q 030489          117 FDVYEE  122 (176)
Q Consensus       117 ~~~~~~  122 (176)
                      +++++.
T Consensus       338 mkLLQ~  343 (370)
T KOG4567|consen  338 MKLLQN  343 (370)
T ss_pred             HHHHhc
Confidence            777764

>PRK09462 fur ferric uptake regulator; Provisional

Probab=82.43  E-value=9.8  Score=23.90  Aligned_cols=61  Identities=18%  Similarity=0.183  Sum_probs=36.0

Q ss_pred             HHhhCCCCccHHHHHHHHHHHHhC-CChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCH
Q 030489           17 QLTDRGLEPDIITYNTIICGYCSL-NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (176)
Q Consensus        17 ~~~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   78 (176)
                      .+.+.|.+++..=. .++..+... +..-.|.++++.+.+.+...+..|....++.+...|-+
T Consensus         7 ~l~~~glr~T~qR~-~Il~~l~~~~~~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli   68 (148)
T PRK09462          7 ALKKAGLKVTLPRL-KILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIV   68 (148)
T ss_pred             HHHHcCCCCCHHHH-HHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCCE
Confidence            34455665444332 444444443 45667777777777766666666666666666666654

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=82.24  E-value=12  Score=24.74  Aligned_cols=48  Identities=10%  Similarity=0.108  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHHhcCCCC--cHHHHH-----HHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           78 MDDATMMFSKMLEKGPKA--NVVTYS-----CLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~--~~~~~~-----~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      ++.|..+|+.+.+.-..|  -.....     ..+-.|.+.|.+++|.+++++...
T Consensus        85 LESAl~v~~~I~~E~~~~~~lhe~i~~lik~~aV~VCm~~g~Fk~A~eiLkr~~~  139 (200)
T cd00280          85 LESALMVLESIEKEFSLPETLHEEIRKLIKEQAVAVCMENGEFKKAEEVLKRLFS  139 (200)
T ss_pred             HHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHhc
Confidence            456777777666543332  111111     233456677777777777776654

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.

>PF13934 ELYS: Nuclear pore complex assembly

Probab=81.80  E-value=14  Score=25.22  Aligned_cols=20  Identities=15%  Similarity=0.227  Sum_probs=10.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHH
Q 030489           68 LIDAFCKEGRMDDATMMFSK   87 (176)
Q Consensus        68 ll~~~~~~~~~~~a~~~~~~   87 (176)
                      ++.++...|+.+.|..+++.
T Consensus       114 Il~~L~~~~~~~lAL~y~~~  133 (226)
T PF13934_consen  114 ILQALLRRGDPKLALRYLRA  133 (226)
T ss_pred             HHHHHHHCCChhHHHHHHHh
Confidence            44444445555555555544

>PF10255 Paf67: RNA polymerase I-associated factor PAF67; InterPro: IPR019382 RNA polymerase I is a multi-subunit enzyme and its transcription competence is dependent on the presence of PAF67 []

Probab=81.80  E-value=17  Score=27.24  Aligned_cols=59  Identities=19%  Similarity=0.303  Sum_probs=46.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHh--cC-----CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           66 TILIDAFCKEGRMDDATMMFSKMLE--KG-----PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        66 ~~ll~~~~~~~~~~~a~~~~~~~~~--~~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      ..|++.++-.|++..|.++++.+.-  .+     +.-.+.+|-.+-.+|...+++.+|.++|..+.
T Consensus       126 igLlRvh~LLGDY~~Alk~l~~idl~~~~l~~~V~~~~is~~YyvGFaylMlrRY~DAir~f~~iL  191 (404)
T PF10255_consen  126 IGLLRVHCLLGDYYQALKVLENIDLNKKGLYTKVPACHISTYYYVGFAYLMLRRYADAIRTFSQIL  191 (404)
T ss_pred             HHHHHHHHhccCHHHHHHHhhccCcccchhhccCcchheehHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567888899999999999987641  11     22345678888899999999999999999863

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=81.51  E-value=22  Score=28.59  Aligned_cols=89  Identities=19%  Similarity=0.185  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcH---------
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANV---------   97 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------   97 (176)
                      ..+...+...+.+...+.-|-++|..|-.         ...++......+++++|..+-+..-+.  .||+         
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            34444444545555666667777766542         235667778888899988887765432  1222         


Q ss_pred             --HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           98 --VTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        98 --~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                        .-|...=.+|.+.|+-.+|..+++++...
T Consensus       816 E~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  816 ENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence              11222234455555555555555555443

>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=81.48  E-value=15  Score=25.38  Aligned_cols=59  Identities=10%  Similarity=0.098  Sum_probs=42.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHh----cC-CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           66 TILIDAFCKEGRMDDATMMFSKMLE----KG-PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        66 ~~ll~~~~~~~~~~~a~~~~~~~~~----~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      -.+..-|.+.|++++|.++|+.+..    .| ..+...+...+..++.+.|+.+..+.+--++.
T Consensus       182 ~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l~~~leLl  245 (247)
T PF11817_consen  182 LEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYLTTSLELL  245 (247)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            3456778888999999988888752    12 24455667777888888888888877665553

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.

>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]

Probab=81.08  E-value=19  Score=26.30  Aligned_cols=88  Identities=15%  Similarity=0.241  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhC---CCCcChhhHH--HHHHHHHhcCCHHHHHHHHHHHHh-----cCCCCcHH
Q 030489           29 TYNTIICGYCSLNRLDEAVQLFEKLTCV---QLKPNSITFT--ILIDAFCKEGRMDDATMMFSKMLE-----KGPKANVV   98 (176)
Q Consensus        29 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~   98 (176)
                      ....++...-+.++.++|+++++++...   --.|+...|.  .+..++...|+..++.+++++..+     .+++|++.
T Consensus        77 lvei~l~~~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh  156 (380)
T KOG2908|consen   77 LVEILLVVSEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVH  156 (380)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhh
Confidence            3445566666777999999999988753   2345665554  445667788999999999998887     67777665


Q ss_pred             H-HHHHHHH-HHhcCCHHHH
Q 030489           99 T-YSCLIDG-YFKSQNMKSA  116 (176)
Q Consensus        99 ~-~~~l~~~-~~~~g~~~~a  116 (176)
                      + |+.+-.- |.+.|++...
T Consensus       157 ~~fY~lssqYyk~~~d~a~y  176 (380)
T KOG2908|consen  157 SSFYSLSSQYYKKIGDFASY  176 (380)
T ss_pred             hhHHHHHHHHHHHHHhHHHH
Confidence            5 5555444 4445666553

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=81.01  E-value=18  Score=25.93  Aligned_cols=121  Identities=13%  Similarity=0.187  Sum_probs=75.2

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHH-------HHHHHHHHHHhCCChhHHHHHHHH----HHhCCCCcChhhHHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDII-------TYNTIICGYCSLNRLDEAVQLFEK----LTCVQLKPNSITFTILIDA   71 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~ll~~~~~~~~~~~a~~~~~~----m~~~~~~~~~~~~~~ll~~   71 (176)
                      ++.+++++|...+.++...|...+..       +...+...|...|+...--+....    |....-+-..-...+|+.-
T Consensus        14 v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k~~KiirtLiek   93 (421)
T COG5159          14 VKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTITSSREAMEDFTKPKITKIIRTLIEK   93 (421)
T ss_pred             hhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHHHhhHHHHHHhcchhHHHHHHHHHHh
Confidence            56889999999999999998776554       455677888888887665444432    2222112233444555554


Q ss_pred             H-HhcCCHHHHHHHHHHHHhcCCC-----CcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           72 F-CKEGRMDDATMMFSKMLEKGPK-----ANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        72 ~-~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      + .....++.-+.+....++.-..     .....=..++..+.+.|.+.+|+.+...+
T Consensus        94 f~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~YsdalalIn~l  151 (421)
T COG5159          94 FPYSSDSLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGKYSDALALINPL  151 (421)
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            4 2344555555555554432211     01122245788899999999999887654

>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]

Probab=80.84  E-value=7.5  Score=22.91  Aligned_cols=61  Identities=16%  Similarity=0.252  Sum_probs=28.8

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC--CHHHHHHHHHHHHhcCC
Q 030489           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG--RMDDATMMFSKMLEKGP   93 (176)
Q Consensus        31 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~   93 (176)
                      ..++.-|...++.++|...+.++...  .--......++..+...+  .-+.+-.++..+.+.+.
T Consensus         6 ~~~l~ey~~~~d~~ea~~~l~el~~~--~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~~   68 (113)
T PF02847_consen    6 FSILMEYFSSGDVDEAVECLKELKLP--SQHHEVVKVILECALEEKKSYREYYSKLLSHLCKRKL   68 (113)
T ss_dssp             HHHHHHHHHHT-HHHHHHHHHHTT-G--GGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHhCCC--ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcCC
Confidence            34555666667777777777665322  112223333444433332  22334455555555544

It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=80.69  E-value=5.3  Score=31.28  Aligned_cols=23  Identities=35%  Similarity=0.489  Sum_probs=0.0

Q ss_pred             CChHHHHHHHHHHHHCCCCCcHH
Q 030489          134 GRPTEAMQLYDSMLRNGIMPDGL  156 (176)
Q Consensus       134 ~~~~~a~~~~~~m~~~g~~p~~~  156 (176)
                      +++.+|.+.+-.+...++.|...
T Consensus       509 ~~~~~Aa~~Lv~Ll~~~~~Pk~f  531 (566)
T PF07575_consen  509 GDFREAASLLVSLLKSPIAPKSF  531 (566)
T ss_dssp             -----------------------
T ss_pred             hhHHHHHHHHHHHHCCCCCcHHH
Confidence            55566666655555555555443

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.

>KOG3807 consensus Predicted membrane protein ST7 (tumor suppressor in humans) [General function prediction only]

Probab=80.26  E-value=21  Score=26.20  Aligned_cols=56  Identities=16%  Similarity=0.189  Sum_probs=34.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 030489           67 ILIDAFCKEGRMDDATMMFSKMLEKGPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEE  122 (176)
Q Consensus        67 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~  122 (176)
                      .|..+..+.|+..+|.+.|+++.+.-.-. -......|++++....-+..+..++-+
T Consensus       280 RLAMCARklGrlrEA~K~~RDL~ke~pl~t~lniheNLiEalLE~QAYADvqavLak  336 (556)
T KOG3807|consen  280 RLAMCARKLGRLREAVKIMRDLMKEFPLLTMLNIHENLLEALLELQAYADVQAVLAK  336 (556)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45555677889999999988877552211 112334577777666655555555443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	176
2fo7_A	136	Crystal Structure Of An 8 Repeat Consensus Tpr Supe		2e-04

>pdb|2FO7|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix (Trigonal Crystal Form) Length = 136

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/91 (27%), Positives = 46/91 (50%), Gaps = 4/91 (4%)
Query: 36  GYCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDDATMMFSKMLEKGPK 94
            Y      DEA++ ++K   ++L P S   +  L +A+ K+G  D+A   + K LE  P+
Sbjct: 10  AYYKQGDYDEAIEYYQK--ALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR 67
Query: 95  ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE 125
           +    Y+ L + Y+K  +   A + Y++  E
Sbjct: 68  SAEAWYN-LGNAYYKQGDYDEAIEYYQKALE 97

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	176
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-07
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	2e-07
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	2e-05
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	3e-05
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	2e-04
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;	5e-04
2gw1_A	514	Mitochondrial precursor proteins import receptor;	6e-04
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	3e-05
3tax_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	4e-05
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	1e-04
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	1e-04
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	2e-04
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	2e-04
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	4e-04
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	4e-04
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	9e-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 = 69.5 bits (168), Expect = 2e-14
 Identities = 14/129 (10%), Positives = 40/129 (31%), Gaps = 4/129 (3%)

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 MCENNISPN 131
           M +  +   
Sbjct: 227 MSQEGLKLQ 235

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.4 bits (129), Expect = 3e-09
 Identities = 9/79 (11%), Positives = 25/79 (31%), Gaps = 3/79 (3%)

Query: 57  QLKPNSITFTILIDAFCKEGRMDDATMM---FSKMLEKGPKANVVTYSCLIDGYFKSQNM 113
           QL                  ++  A  +        +K     +  Y+ ++ G+ +    
Sbjct: 122 QLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAF 181

Query: 114 KSAFDVYEEMCENNISPNI 132
           K    V   + +  ++P++
Sbjct: 182 KELVYVLFMVKDAGLTPDL 200

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 48.3 bits (113), Expect = 3e-07
 Identities = 13/108 (12%), Positives = 36/108 (33%), Gaps = 1/108 (0%)

Query: 7   HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQ-LFEKLTCVQLKPNSITF 65
                + +   + D GL PD+++Y   +      ++    ++   E+++   LK  ++  
Sbjct: 180 AFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFT 239

Query: 66  TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM 113
            +L+    +   +     +             V  S L+   +     
Sbjct: 240 AVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGR 287

>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 = 49.1 bits (118), Expect = 2e-07
 Identities = 29/181 (16%), Positives = 59/181 (32%), Gaps = 32/181 (17%)

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 NNISPNIA-------------GRPTEAMQLYDSMLRNGIMPD--------GLLLSTLADY 164
              +P++              GR  EA   Y   +     P+        G + +   + 
Sbjct: 130 --YNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE--TQPNFAVAWSNLGCVFNAQGEI 185

Query: 165 N 165
            
Sbjct: 186 W 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 = 42.9 bits (102), Expect = 2e-05
 Identities = 26/151 (17%), Positives = 50/151 (33%), Gaps = 29/151 (19%)

Query: 37  YCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDDATMMFSKMLEKGPKA 95
                  + A +   +L   + +P++     +L     +  R+D +    +  +++ P  
Sbjct: 9   EYQAGDFEAAERHCMQLW--RQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL- 65

Query: 96  NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQL 142
               YS L + Y +   ++ A + Y       + P+               G    A+Q 
Sbjct: 66  LAEAYSNLGNVYKERGQLQEAIEHYRHALR--LKPDFIDGYINLAAALVAAGDMEGAVQA 123

Query: 143 YDSMLRNGIMPD--------GLLLSTLADYN 165
           Y S L+    PD        G LL  L    
Sbjct: 124 YVSALQ--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 = 42.1 bits (100), Expect = 3e-05
 Identities = 28/159 (17%), Positives = 55/159 (34%), Gaps = 22/159 (13%)

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 VYEEMCENNISPNIA-------------GRPTEAMQLYD 144
            +E+     + PN                    A+  Y 
Sbjct: 191 HFEKAVT--LDPNFLDAYINLGNVLKEARIFDRAVAAYL 227

>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 = 39.4 bits (93), Expect = 2e-04
 Identities = 23/113 (20%), Positives = 44/113 (38%), Gaps = 7/113 (6%)

Query: 23  LEPDII-TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDD 80
           L+P     Y  +         + EA   +     ++L P    +   L +   ++G +++
Sbjct: 266 LQPHFPDAYCNLANALKEKGSVAEAEDCYNT--ALRLCPTHADSLNNLANIKREQGNIEE 323

Query: 81  ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA 133
           A  ++ K LE  P+     +S L     +   ++ A   Y+E     ISP  A
Sbjct: 324 AVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFA 373

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 45.9 bits (109), Expect = 2e-06
 Identities = 25/155 (16%), Positives = 45/155 (29%), Gaps = 21/155 (13%)

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 NISPNIA-------------GRPTEAMQLYDSMLR 148
              P                    +A++ YD  + 
Sbjct: 368 F--PEAPEVPNFFAEILTDKNDFDKALKQYDLAIE 400

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 40.5 bits (95), Expect = 1e-04
 Identities = 24/145 (16%), Positives = 48/145 (33%), Gaps = 27/145 (18%)

Query: 23  LEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDD 80
           L+P+ I  Y  + C     N+ D+   LF +    +  P +        +    +   D 
Sbjct: 333 LDPENIFPYIQLACLAYRENKFDDCETLFSE--AKRKFPEAPEVPNFFAEILTDKNDFDK 390

Query: 81  ATMMFSKMLEKGPK--------ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI 132
           A   +   +E   K        A +V  + L+      +N   A ++ E+  +  + P  
Sbjct: 391 ALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASK--LDPRS 448

Query: 133 A-------------GRPTEAMQLYD 144
                             EA+ L++
Sbjct: 449 EQAKIGLAQMKLQQEDIDEAITLFE 473

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 38.6 bits (90), Expect = 5e-04
 Identities = 29/165 (17%), Positives = 51/165 (30%), Gaps = 12/165 (7%)

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 EEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYN 165
                   +     R  +   L                 T A+Y+
Sbjct: 137 TATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYD 181

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 38.6 bits (90), Expect = 6e-04
 Identities = 24/181 (13%), Positives = 50/181 (27%), Gaps = 31/181 (17%)

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 NNISPNIA-------------GRPTEAMQLYDSMLRNGIMPD--------GLLLSTLADY 164
             + P                 +  +   L+    R    P+          +L+   D+
Sbjct: 333 --LDPENIFPYIQLACLAYRENKFDDCETLFSEAKR--KFPEAPEVPNFFAEILTDKNDF 388

Query: 165 N 165
           +
Sbjct: 389 D 389

>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 = 42.4 bits (100), Expect = 3e-05
 Identities = 26/180 (14%), Positives = 57/180 (31%), Gaps = 31/180 (17%)

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 NISPNIA-------------GRPTEAMQLYDSMLRNGIMPD--------GLLLSTLADYN 165
            ++P                G+ TE+   ++        P           +L+   D++
Sbjct: 339 -LNPENVYPYIQLACLLYKQGKFTESEAFFNETKL--KFPTLPEVPTFFAEILTDRGDFD 395

>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 = 42.1 bits (98), Expect = 4e-05
 Identities = 26/129 (20%), Positives = 53/129 (41%), Gaps = 21/129 (16%)

Query: 40  LNRLDEAVQLFEKLTCVQLKPNSITFTI-LIDAFCKEGRMDDATMMFSKMLEKGPKANVV 98
              ++EAV+L+ K   +++ P        L     ++G++ +A M + + +   P     
Sbjct: 22  QGNIEEAVRLYRKA--LEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFAD 78

Query: 99  TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDS 145
            YS + +   + Q+++ A   Y    +  I+P  A             G   EA+  Y +
Sbjct: 79  AYSNMGNTLKEMQDVQGALQCYTRAIQ--INPAFADAHSNLASIHKDSGNIPEAIASYRT 136

Query: 146 MLRNGIMPD 154
            L+  + PD
Sbjct: 137 ALK--LKPD 143

>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 = 40.1 bits (94), Expect = 1e-04
 Identities = 25/169 (14%), Positives = 51/169 (30%), Gaps = 22/169 (13%)

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-NLAANIFLGNYYYLTAEQEKKKLETDYKKLS- 151

Query: 127 NISPNIA-------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLA 162
                +               R  +A      ++     P      TL 
Sbjct: 152 -SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTLD 197

>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 = 40.2 bits (94), Expect = 1e-04
 Identities = 12/128 (9%), Positives = 32/128 (25%), Gaps = 9/128 (7%)

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 NNISPNIA 133
             + P   
Sbjct: 120 --LLPEEP 125

>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 Length = 368

 Score = 40.0 bits (94), Expect = 2e-04
 Identities = 21/140 (15%), Positives = 43/140 (30%), Gaps = 24/140 (17%)

Query: 37  YCSLNRLDEAVQLFEKLTCVQLKPNS-ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKA 95
                +   A+    +  C++LKP++      L  +F  E     A  +    L   P  
Sbjct: 108 QAENEQELLAISALRR--CLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA- 164

Query: 96  NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPD- 154
               Y+ L+    +             +     S        E  +L+ + +R  + P  
Sbjct: 165 ----YAHLVTPAEEGAGGAGLGPSKRIL----GSLLSDSLFLEVKELFLAAVR--LDPTS 214

Query: 155 ---------GLLLSTLADYN 165
                    G+L +   +Y+
Sbjct: 215 IDPDVQCGLGVLFNLSGEYD 234

>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 = 2e-04
 Identities = 27/164 (16%), Positives = 54/164 (32%), Gaps = 27/164 (16%)

Query: 1   MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP 60
           +   + + DAAL+   Q              T+      L+RLD A +  +K+       
Sbjct: 110 IYFYDQNPDAALRTLHQGDSLEC-----MAMTVQI-LLKLDRLDLARKELKKM--QDQDE 161

Query: 61  NSITF---TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAF 117
           ++      T  +       ++ DA  +F +M +K     ++  +     +      ++A 
Sbjct: 162 DATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSP-TLLLLNGQAACHMAQGRWEAAE 220

Query: 118 DVYEEMCENNISPN-------------IAGRPTEAMQLYDSMLR 148
            V +E  +                     G+P E    Y S L+
Sbjct: 221 GVLQEALD--KDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLK 262

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 39.1 bits (91), Expect = 4e-04
 Identities = 16/86 (18%), Positives = 31/86 (36%), Gaps = 6/86 (6%)

Query: 7   HLDAALKLFGQLTDRGLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-T 64
             +    +   L D    P+  +T+  +   Y  +N++ EA + F K     + P     
Sbjct: 354 EKNKLYLISNDLVD--RHPEKAVTWLAVGIYYLCVNKISEARRYFSK--SSTMDPQFGPA 409

Query: 65  FTILIDAFCKEGRMDDATMMFSKMLE 90
           +     +F  EG  D A   ++    
Sbjct: 410 WIGFAHSFAIEGEHDQAISAYTTAAR 435

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A Length = 151

 Score = 37.8 bits (88), Expect = 4e-04
 Identities = 10/95 (10%), Positives = 31/95 (32%), Gaps = 7/95 (7%)

Query: 37  YCSLNRLDEAVQLFEKLTCVQLKPNSITFTI-LIDAFCKEGRMDDATMMFSKMLEKGPKA 95
           + +  R++EA   F  L        ++ + + L   +  + +   A  +++     G   
Sbjct: 46  FYNKGRIEEAEVFFRFL--CIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN- 102

Query: 96  NVVTYSCLIDGYFKSQNMKSAFDVYE---EMCENN 127
           +            + +    A + +E   +   + 
Sbjct: 103 DYTPVFHTGQCQLRLKAPLKAKECFELVIQHSNDE 137

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A Length = 142

 Score = 37.0 bits (86), Expect = 9e-04
 Identities = 10/95 (10%), Positives = 26/95 (27%), Gaps = 7/95 (7%)

Query: 37  YCSLNRLDEAVQLFEKLTCVQLKPNSITFTI-LIDAFCKEGRMDDATMMFSKMLEKGPKA 95
                + D+A ++F+ L    L      + + L       G  + A   +S         
Sbjct: 28  QYQAGKWDDAQKIFQAL--CMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN- 84

Query: 96  NVVTYSCLIDGYFKSQNMKSAFDVYE---EMCENN 127
                    + + +  ++  A   +     +    
Sbjct: 85  EPRFPFHAAECHLQLGDLDGAESGFYSARALAAAQ 119

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	176
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.91
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.89
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.83
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.82
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.7
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.67
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.66
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.63
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.63
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.63
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.62
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.61
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.61
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.59
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.58
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.58
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.58
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.58
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.58
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.56
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.56
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.55
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.55
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.54
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.54
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.54
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.53
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.53
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.53
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.52
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.51
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.5
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.5
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.5
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.49
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.48
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.48
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.47
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.46
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.45
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.45
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.44
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.44
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.43
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.41
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.41
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.4
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.4
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.39
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.39
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.39
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.38
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.35
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.35
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.34
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.33
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.3
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.3
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.3
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.26
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.25
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.25
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.24
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.23
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.22
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.22
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.21
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.21
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.2
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.2
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.19
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.18
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.16
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.16
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.15
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.14
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.14
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.14
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.13
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.13
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.11
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.11
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.1
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.1
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.09
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.09
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.09
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.09
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.08
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.08
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.07
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.07
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.06
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.05
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.05
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	99.05
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.04
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	99.03
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.03
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.02
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	99.02
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	99.02
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.02
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.01
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.01
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	99.01
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.0
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.0
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.0
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.99
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.98
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.98
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.98
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.98
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.95
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.95
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.93
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.92
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.91
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.91
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.91
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.91
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.9
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.9
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.9
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	98.9
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.9
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.9
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.9
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.88
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	98.88
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.88
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.87
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.87
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.87
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.85
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.85
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.84
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.83
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.83
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.82
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.82
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.82
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.81
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.8
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.8
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.79
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.79
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.79
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.77
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.77
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.77
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.76
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.75
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.75
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.74
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.73
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.72
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.72
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.71
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.71
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.69
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.69
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.68
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.68
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.67
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.66
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.65
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.64
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.6
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.58
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.57
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.57
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.55
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.5
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.49
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.49
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.46
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.45
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.44
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.43
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.43
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.41
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.39
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.39
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.38
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.37
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.33
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.28
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.23
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.21
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.21
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.2
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.17
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.15
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.13
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.12
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	98.08
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.99
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.98
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.91
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.89
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.87
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.83
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.81
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.81
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.75
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.74
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.71
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.71
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.55
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.54
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.5
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.5
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.47
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.41
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.36
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.34
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.33
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.28
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.25
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.17
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	97.08
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.03
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.71
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.68
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.66
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.62
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.3
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.01
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.98
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.84
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.81
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	95.75
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.53
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	95.15
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.75
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.4
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.29
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	93.88
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.59
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.22
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.0
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	92.2
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.7
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	91.65
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	91.42
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	91.39
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.32
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	90.25
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	90.16
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	88.65
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	88.16
2p58_C	116	Putative type III secretion protein YSCG; type III	87.99
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	87.97
3eyy_A	145	Putative iron uptake regulatory protein; NUR, nick	86.18
1mzb_A	136	Ferric uptake regulation protein; ferric uptake re	85.61
2xig_A	150	Ferric uptake regulation protein; hpfur, transcrip	85.15
2w57_A	150	Ferric uptake regulation protein; gene regulation,	85.1
2fe3_A	145	Peroxide operon regulator; oxidative stress regula	84.54
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	84.48
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	83.21
3bu8_A	235	Telomeric repeat-binding factor 2; TRF2 TRFH domai	82.73
2d2s_A	235	Exocyst complex component EXO84; tethering complex	82.51
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	82.38
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	82.22
4ets_A	162	Ferric uptake regulation protein; metal binding pr	81.9
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	81.66
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	81.5
2p58_C	116	Putative type III secretion protein YSCG; type III	80.81
2fu4_A	83	Ferric uptake regulation protein; DNA binding doma	80.25

>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=9.4e-38  Score=229.44  Aligned_cols=170  Identities=15%  Similarity=0.222  Sum_probs=163.5

Q ss_pred             CchhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCC---------hhHHHHHHHHHHhCCCCcChhhHHHHHHH
Q 030489            1 MLIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNR---------LDEAVQLFEKLTCVQLKPNSITFTILIDA   71 (176)
Q Consensus         1 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---------~~~a~~~~~~m~~~~~~~~~~~~~~ll~~   71 (176)
                      +|++.|++++|+++|++|.+.|++||..+||+||.+|++.+.         +++|.++|++|...|+.||..||++||.+
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            489999999999999999999999999999999999998765         67899999999999999999999999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHH
Q 030489           72 FCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEA  139 (176)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a  139 (176)
                      |++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.|+..            |+.++|
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            99999999999999999999999999999999999999999999999999999999999988            999999


Q ss_pred             HHHHHHHHHCCCCCcHHHHHHHHHHhhcccC
Q 030489          140 MQLYDSMLRNGIMPDGLLLSTLADYNLQSSG  170 (176)
Q Consensus       140 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  170 (176)
                      .++|++|.+.|..|+..||+.++..|+..+.
T Consensus       195 ~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~a  225 (501)
T 4g26_A          195 YKTLQRLRDLVRQVSKSTFDMIEEWFKSEVA  225 (501)
T ss_dssp             HHHHHHHHHHTSSBCHHHHHHHHHHHHSHHH
T ss_pred             HHHHHHHHHhCCCcCHHHHHHHHHHHhcCcc
Confidence            9999999999999999999999999987543

>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=2.3e-33  Score=206.18  Aligned_cols=166  Identities=13%  Similarity=0.203  Sum_probs=142.5

Q ss_pred             hHHHHHHHHHhhCCCCcc-HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC---------H
Q 030489            9 DAALKLFGQLTDRGLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR---------M   78 (176)
Q Consensus         9 ~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~---------~   78 (176)
                      ..+..+.+.+.+.+..+. ...++.+|++|++.|++++|+++|++|.+.|+.||..||++||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            445666777877776554 456899999999999999999999999999999999999999999988765         6


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHH
Q 030489           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSM  146 (176)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m  146 (176)
                      +.|.++|++|.+.|+.||..||+.||.+|++.|++++|.++|++|.+.|+.|+..            |++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            8899999999999999999999999999999999999999999999999999987            9999999999999


Q ss_pred             HHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          147 LRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       147 ~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .+.|+.||..||++||.+|++.|++++|
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A  194 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKV  194 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHH
Confidence            9999999999999999999999999876

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.91  E-value=4.2e-24  Score=164.02  Aligned_cols=143  Identities=7%  Similarity=0.063  Sum_probs=120.1

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHh---CCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTC---VQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSC  102 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  102 (176)
                      -..|||++|++|++.|++++|.++|.+|.+   .|+.||..|||+||++|++.|++++|.++|++|.+.|+.||..|||+
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            456899999999999999999999988764   58999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCC-HHHHHHHHHHHHHCCCCCCCC--------CChHHHHHHHHHHHHCCCCCc------HHHHHHHHHHhhc
Q 030489          103 LIDGYFKSQN-MKSAFDVYEEMCENNISPNIA--------GRPTEAMQLYDSMLRNGIMPD------GLLLSTLADYNLQ  167 (176)
Q Consensus       103 l~~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~--------~~~~~a~~~~~~m~~~g~~p~------~~~~~~l~~~~~~  167 (176)
                      ||.++++.|+ .++|.++|++|.+.|+.|+..        ...+.+++..+++ ..++.|+      ..+...|.+.|.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl~s~  284 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDVYAK  284 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHHHCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHh-CcccCCCCCCcccccchHHHHHHHcc
Confidence            9999999998 478999999999999999887        4455666666666 4456655      3345556666665


Q ss_pred             cc
Q 030489          168 SS  169 (176)
Q Consensus       168 ~g  169 (176)
                      .+
T Consensus       285 d~  286 (1134)
T 3spa_A          285 DG  286 (1134)
T ss_dssp             CS
T ss_pred             CC
Confidence            54

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.89  E-value=1.3e-23  Score=161.33  Aligned_cols=126  Identities=12%  Similarity=0.188  Sum_probs=110.3

Q ss_pred             CchhhCChhHHHHHHHHHhh---CCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC
Q 030489            1 MLIKECHLDAALKLFGQLTD---RGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR   77 (176)
Q Consensus         1 ~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   77 (176)
                      +||+.|++++|.++|+.|.+   .|+.||..|||+||++|++.|++++|.++|++|.+.|+.||..||++||+++++.|+
T Consensus       136 glcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~glcK~G~  215 (1134)
T 3spa_A          136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQ  215 (1134)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCC
Confidence            58999999999999988764   589999999999999999999999999999999999999999999999999999998


Q ss_pred             -HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 030489           78 -MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN  131 (176)
Q Consensus        78 -~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  131 (176)
                       .+.|.++|++|.+.|+.||..+|++++.++.+.    .+++..+++ ..+..|.
T Consensus       216 ~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~  265 (1134)
T 3spa_A          216 DAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLP  265 (1134)
T ss_dssp             CHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCC
T ss_pred             cHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCC
Confidence             578999999999999999999999999877655    444444444 3344443

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.83  E-value=8.3e-19  Score=131.27  Aligned_cols=169  Identities=9%  Similarity=0.012  Sum_probs=107.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..+|+.+..+|.+.|++++|
T Consensus       383 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A  460 (597)
T 2xpi_A          383 YLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLA  460 (597)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            455666666766666666543 2356666666666777777777777776666553 23566666666777777777777


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCCCC--------------CChHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN----NISPNIA--------------GRPTEAMQLY  143 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~~~~~~--------------~~~~~a~~~~  143 (176)
                      .++|+++.+.... +..+|+.++..|.+.|++++|.++|+++.+.    +..|+..              |++++|.+.|
T Consensus       461 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~  539 (597)
T 2xpi_A          461 NEYLQSSYALFQY-DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDAL  539 (597)
T ss_dssp             HHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            7777776665433 6666777777777777777777777766544    4444421              7777777777


Q ss_pred             HHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          144 DSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       144 ~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +++.+.+ ..+..+|..+..+|.+.|++++|
T Consensus       540 ~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A  569 (597)
T 2xpi_A          540 NQGLLLS-TNDANVHTAIALVYLHKKIPGLA  569 (597)
T ss_dssp             HHHHHHS-SCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHhC-CCChHHHHHHHHHHHHhCCHHHH
Confidence            7766542 22556666777777777766655

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.82  E-value=8e-19  Score=131.35  Aligned_cols=169  Identities=13%  Similarity=0.084  Sum_probs=114.7

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      .+.|++++|.++|+++.+.. +.+..+|+.+..+|.+.|++++|+++|+++.+.. +.+..+|+.++.+|.+.|++++|.
T Consensus       350 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  427 (597)
T 2xpi_A          350 HESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAI  427 (597)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            34455555555555554332 3356677777777777777777777777776543 225667777777777777777777


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHC--
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRN--  149 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~--  149 (176)
                      ++|+++.+.+. .+..+|+.++.+|.+.|++++|.++|+++.+........           |++++|.++|+++.+.  
T Consensus       428 ~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  506 (597)
T 2xpi_A          428 SAYTTAARLFQ-GTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVK  506 (597)
T ss_dssp             HHHHHHHHTTT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhh
Confidence            77777776643 366777777777777777777777777776543221111           8888888888888754  


Q ss_pred             --CCCCc--HHHHHHHHHHhhcccCcccc
Q 030489          150 --GIMPD--GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       150 --g~~p~--~~~~~~l~~~~~~~g~~~~A  174 (176)
                        +..|+  ..++..+..+|.+.|++++|
T Consensus       507 ~~~~~p~~~~~~~~~l~~~~~~~g~~~~A  535 (597)
T 2xpi_A          507 KTQSNEKPWAATWANLGHAYRKLKMYDAA  535 (597)
T ss_dssp             HSCCCSGGGHHHHHHHHHHHHHTTCHHHH
T ss_pred             ccccchhhHHHHHHHHHHHHHHhcCHHHH
Confidence              66777  67888888888888887766

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.70  E-value=5.9e-15  Score=97.63  Aligned_cols=167  Identities=18%  Similarity=0.104  Sum_probs=138.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhc------
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE------   75 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~------   75 (176)
                      +.+.|++++|...|++..+.. |.+...+..+..++.+.|++++|+..+++..+... .+...+..+..++.+.      
T Consensus        15 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~~~~~~~   92 (217)
T 2pl2_A           15 LYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTP-RYLGGYMVLSEAYVALYRQAED   92 (217)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHTCSS
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhhhhhhh
Confidence            567899999999999999875 44889999999999999999999999999987642 3677888899999999      


Q ss_pred             -----CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHH
Q 030489           76 -----GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTE  138 (176)
Q Consensus        76 -----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~  138 (176)
                           |++++|...|++..+..+. +...|..+..+|...|++++|+..|++..+.+  .+..            |++++
T Consensus        93 ~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~  169 (217)
T 2pl2_A           93 RERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDE  169 (217)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHH
T ss_pred             hcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHH
Confidence                 9999999999999988655 78899999999999999999999999998876  2222            99999


Q ss_pred             HHHHHHHHHHCCCCC-cHHHHHHHHHHhhcccCccccC
Q 030489          139 AMQLYDSMLRNGIMP-DGLLLSTLADYNLQSSGSQEHC  175 (176)
Q Consensus       139 a~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~  175 (176)
                      |+..|++..+.  .| +...+..+...+...|+.++|.
T Consensus       170 A~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~  205 (217)
T 2pl2_A          170 ALAQYAKALEQ--APKDLDLRVRYASALLLKGKAEEAA  205 (217)
T ss_dssp             HHHHHHHHHHH--STTCHHHHHHHHHHHTC--------
T ss_pred             HHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHH
Confidence            99999999875  34 4667888999999999998874

>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=99.67  E-value=1.2e-14  Score=103.62  Aligned_cols=142  Identities=20%  Similarity=0.191  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (176)
                      ..|..+...+...|++++|+..|++..... +.+..++..+..++.+.|++++|.+.|+++.+.++. +..+|..+..+|
T Consensus       204 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~  281 (388)
T 1w3b_A          204 DAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANAL  281 (388)
T ss_dssp             HHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHH
Confidence            333333444444444444444444333321 113555666667777777777777777777765433 566677777777


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          108 FKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       108 ~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .+.|++++|...|+++.+..  |+..             |++++|.+.++++.+. .+.+..++..+...+.+.|++++|
T Consensus       282 ~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A  358 (388)
T 1w3b_A          282 KEKGSVAEAEDCYNTALRLC--PTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEA  358 (388)
T ss_dssp             HHHSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHH
T ss_pred             HHcCCHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHH
Confidence            77777777777777776542  2222             7777777777777654 122355677777777777777665

>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=99.66  E-value=1.6e-14  Score=102.95  Aligned_cols=167  Identities=18%  Similarity=0.184  Sum_probs=111.2

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      +.|++++|.++|+++.+.. +.+..+|..+...+...|++++|+..|+++.+.+. .+...+..+...+...|++++|..
T Consensus       147 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~  224 (388)
T 1w3b_A          147 ALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVA  224 (388)
T ss_dssp             TTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHH
T ss_pred             HccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHH
Confidence            3466666666666665543 22456666666666666666666666666665432 245556666666666677777777


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHCCCC
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRNGIM  152 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~g~~  152 (176)
                      .|++..+..+. +..++..+...|.+.|++++|...|+++.+.+......           |++++|.+.|+++.+. .+
T Consensus       225 ~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p  302 (388)
T 1w3b_A          225 AYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CP  302 (388)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CT
T ss_pred             HHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-Cc
Confidence            77666665433 56777888888888888888888888887653221111           8888888888888764 24


Q ss_pred             CcHHHHHHHHHHhhcccCcccc
Q 030489          153 PDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       153 p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .+..++..+...+...|++++|
T Consensus       303 ~~~~~~~~l~~~~~~~g~~~~A  324 (388)
T 1w3b_A          303 THADSLNNLANIKREQGNIEEA  324 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHH
Confidence            4567888888888888887765

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.63  E-value=2.7e-14  Score=95.19  Aligned_cols=169  Identities=16%  Similarity=0.140  Sum_probs=131.8

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|..+|+++.+.. +.+...+..+...+...|++++|+..+++..+.. +.+..++..+...+...|++++|
T Consensus        33 ~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  110 (243)
T 2q7f_A           33 GSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKEMYKEA  110 (243)
T ss_dssp             ---------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhccHHHH
Confidence            467889999999999998764 4478889999999999999999999999988764 33677888888999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHCC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRNG  150 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~g  150 (176)
                      .+.+++..+.... +...+..+...|.+.|++++|...+++...........           |++++|...+++..+..
T Consensus       111 ~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  189 (243)
T 2q7f_A          111 KDMFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEALSQFAAVTEQD  189 (243)
T ss_dssp             HHHHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999887643 78889999999999999999999999987653221111           99999999999988652


Q ss_pred             CCCcHHHHHHHHHHhhcccCcccc
Q 030489          151 IMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       151 ~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                       ..+..++..+...+...|+.++|
T Consensus       190 -~~~~~~~~~la~~~~~~~~~~~A  212 (243)
T 2q7f_A          190 -PGHADAFYNAGVTYAYKENREKA  212 (243)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCTTHH
T ss_pred             -cccHHHHHHHHHHHHHccCHHHH
Confidence             23467888889999999998876

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.63  E-value=5.8e-14  Score=94.29  Aligned_cols=170  Identities=9%  Similarity=-0.011  Sum_probs=135.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +...|++++|.++|+++.+.. +.+..++..+...+...|++++|++.++++.+... .+...+..+...+...|++++|
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            456889999999999988764 44788899999999999999999999999887642 3677888888999999999999


Q ss_pred             HHHHHHHHhcCCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHC
Q 030489           82 TMMFSKMLEKGPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus        82 ~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~  149 (176)
                      .+.++++.+.+..| +...+..+...|...|++++|...+++...........           |++++|...++++.+.
T Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  204 (252)
T 2ho1_A          125 YQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPARQYYDLFAQG  204 (252)
T ss_dssp             HHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999988732223 66788888999999999999999999987654221111           9999999999998864


Q ss_pred             CCCCcHHHHHHHHHHhhcccCcccc
Q 030489          150 GIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       150 g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      . ..+...+..+...+...|+.++|
T Consensus       205 ~-~~~~~~~~~~~~~~~~~g~~~~A  228 (252)
T 2ho1_A          205 G-GQNARSLLLGIRLAKVFEDRDTA  228 (252)
T ss_dssp             S-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             C-cCcHHHHHHHHHHHHHccCHHHH
Confidence            2 34566778888888888887765

>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=99.63  E-value=2.5e-14  Score=103.58  Aligned_cols=167  Identities=18%  Similarity=0.191  Sum_probs=138.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|+++|+.+.+.. +.+..+|..+..++...|++++|+..|+++.+.+. .+..++..+..+|.+.|++++|
T Consensus        36 ~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A  113 (450)
T 2y4t_A           36 LLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKM-DFTAARLQRGHLLLKQGKLDEA  113 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHH
Confidence            567899999999999998764 45789999999999999999999999999988753 3678888999999999999999


Q ss_pred             HHHHHHHHhcCCCCcH---HHHHHHH------------HHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------
Q 030489           82 TMMFSKMLEKGPKANV---VTYSCLI------------DGYFKSQNMKSAFDVYEEMCENNISPNIA-------------  133 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~---~~~~~l~------------~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------  133 (176)
                      .+.|+++.+..+. +.   ..+..+.            ..+.+.|++++|...|+++....  |...             
T Consensus       114 ~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~  190 (450)
T 2y4t_A          114 EDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC--VWDAELRELRAECFIKE  190 (450)
T ss_dssp             HHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHC
Confidence            9999999987543 44   5666654            44889999999999999987643  3322             


Q ss_pred             CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          134 GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      |++++|+++|+++.+.. ..+..++..+...+...|+.++|
T Consensus       191 g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A  230 (450)
T 2y4t_A          191 GEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELS  230 (450)
T ss_dssp             TCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999998642 34577889999999999998776

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.62  E-value=8.6e-14  Score=91.57  Aligned_cols=171  Identities=11%  Similarity=-0.039  Sum_probs=136.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhc-CCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE-GRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-~~~~~   80 (176)
                      +.+.|++++|.+.|+.+.+.. +.+...+..+...+...|++++|++.+++..+.. +.+..++..+...+... |++++
T Consensus        18 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~~   95 (225)
T 2vq2_A           18 YMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRPAE   95 (225)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcHHH
Confidence            467899999999999998764 4468899999999999999999999999988764 33677888899999999 99999


Q ss_pred             HHHHHHHHHhcCCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        81 a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~  148 (176)
                      |...++++.+.+..| +..++..+..++...|++++|...++++.+........           |++++|...+++..+
T Consensus        96 A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  175 (225)
T 2vq2_A           96 SMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGDADYYFKKYQS  175 (225)
T ss_dssp             HHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999998832222 46788899999999999999999999987653221111           999999999999986


Q ss_pred             CCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          149 NGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       149 ~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .....+...+..+...+...|+.+.|
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~~a  201 (225)
T 2vq2_A          176 RVEVLQADDLLLGWKIAKALGNAQAA  201 (225)
T ss_dssp             HHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hCCCCCHHHHHHHHHHHHhcCcHHHH
Confidence            53214566677777777777776544

>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=99.61  E-value=5e-14  Score=102.00  Aligned_cols=167  Identities=13%  Similarity=0.140  Sum_probs=139.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.++|+.+.+.. +.+..++..+..+|.+.|++++|+.+|+++.+.. +.+..++..+..+|...|++++|
T Consensus       153 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A  230 (450)
T 2y4t_A          153 AFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELS  230 (450)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            567899999999999998764 4478899999999999999999999999988763 34788899999999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHH------------HHHHHhcCCHHHHHHHHHHHHHCCCCCCCC----------------
Q 030489           82 TMMFSKMLEKGPKANVVTYSCL------------IDGYFKSQNMKSAFDVYEEMCENNISPNIA----------------  133 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l------------~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----------------  133 (176)
                      ...|+++.+.... +...+..+            ...|.+.|++++|...|+++....  |+..                
T Consensus       231 ~~~~~~~~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~  307 (450)
T 2y4t_A          231 LSEVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSK  307 (450)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCC-hHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHH
Confidence            9999999877543 55556555            889999999999999999998743  3321                


Q ss_pred             -CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          134 -GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 -~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                       |++++|+..++++.+.. +.+...+..+..+|...|++++|
T Consensus       308 ~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A  348 (450)
T 2y4t_A          308 DEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEA  348 (450)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHH
Confidence             99999999999988642 33578889999999999998876

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.61  E-value=6.5e-14  Score=99.01  Aligned_cols=167  Identities=15%  Similarity=0.130  Sum_probs=122.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.++|+++.+.. +.+..+|..+..++...|++++|+..|++..+.. +.+..++..+..+|...|++++|
T Consensus        75 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  152 (365)
T 4eqf_A           75 RLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQDA  152 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHHHH
Confidence            456788888888888887764 3467888888888888888888888888877654 23567777888888888888888


Q ss_pred             HHHHHHHHhcCCC------------------------------------------C---cHHHHHHHHHHHHhcCCHHHH
Q 030489           82 TMMFSKMLEKGPK------------------------------------------A---NVVTYSCLIDGYFKSQNMKSA  116 (176)
Q Consensus        82 ~~~~~~~~~~~~~------------------------------------------~---~~~~~~~l~~~~~~~g~~~~a  116 (176)
                      .+.|+++.+....                                          |   +..++..+...|.+.|++++|
T Consensus       153 ~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A  232 (365)
T 4eqf_A          153 CEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRA  232 (365)
T ss_dssp             HHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHH
Confidence            8887776653210                                          1   466777777888888888888


Q ss_pred             HHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          117 FDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       117 ~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ...+++..+..  |+..             |++++|+..|++..+.  .|+ ..++..+..+|.+.|+.++|
T Consensus       233 ~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          233 IDAFNAALTVR--PEDYSLWNRLGATLANGDRSEEAVEAYTRALEI--QPGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHCCCHHHH
Confidence            88888776542  3222             8888888888888764  333 66777788888888887765

>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=99.59  E-value=2.1e-13  Score=94.70  Aligned_cols=169  Identities=12%  Similarity=0.117  Sum_probs=141.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC-CHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG-RMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~   80 (176)
                      +...|++++|.++|+++.+.. +.+...+..++..+...|++++|+.+++++.+.. +.+...+..+...+...| ++++
T Consensus        32 ~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~  109 (330)
T 3hym_B           32 HYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEH  109 (330)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHH
Confidence            456799999999999998774 4467778888899999999999999999998764 336778888999999999 9999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHC
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~  149 (176)
                      |.+.|++..+.... +..+|..+...|...|++++|...+++...........           |++++|.+.+++..+.
T Consensus       110 A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  188 (330)
T 3hym_B          110 ARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSI  188 (330)
T ss_dssp             HHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            99999999987644 77889999999999999999999999988754332221           9999999999999865


Q ss_pred             CCCCcHHHHHHHHHHhhcccCcccc
Q 030489          150 GIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       150 g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      . +.+...+..+...+...|++++|
T Consensus       189 ~-~~~~~~~~~l~~~~~~~~~~~~A  212 (330)
T 3hym_B          189 A-PEDPFVMHEVGVVAFQNGEWKTA  212 (330)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             C-CCChHHHHHHHHHHHHcccHHHH
Confidence            3 33567888999999999998776

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.58  E-value=7.1e-14  Score=93.83  Aligned_cols=170  Identities=14%  Similarity=0.112  Sum_probs=136.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCC--cC----hhhHHHHHHHHHhc
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK--PN----SITFTILIDAFCKE   75 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~--~~----~~~~~~ll~~~~~~   75 (176)
                      +.+.|++++|.++|++..+..  .+..+|..+..++...|++++|+..+++..+....  ++    ..++..+...+.+.
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            457899999999999998876  68889999999999999999999999988764211  12    57888889999999


Q ss_pred             CCHHHHHHHHHHHHhcC-------------------------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 030489           76 GRMDDATMMFSKMLEKG-------------------------PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP  130 (176)
Q Consensus        76 ~~~~~a~~~~~~~~~~~-------------------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  130 (176)
                      |++++|...|++..+..                         .+.+...+..+...+...|++++|...+++........
T Consensus        93 ~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~  172 (258)
T 3uq3_A           93 GDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPED  172 (258)
T ss_dssp             TCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             ccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCccc
Confidence            99999999999988732                         22355678888899999999999999999987653221


Q ss_pred             CCC-----------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          131 NIA-----------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       131 ~~~-----------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ...           |++++|...+++..+.. +.+...+..+...+...|+.++|
T Consensus       173 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A  226 (258)
T 3uq3_A          173 ARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASA  226 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHH
Confidence            111           99999999999998652 23467888888999999988766

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.58  E-value=7.7e-14  Score=96.27  Aligned_cols=161  Identities=15%  Similarity=0.161  Sum_probs=110.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCc-cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +.+.++.++|++.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..+...+.+.|++++
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            345677788888888877665333 566666777778888888888888866      3567777777888888888888


Q ss_pred             HHHHHHHHHhcCCCCcHHH--HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVT--YSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDS  145 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~  145 (176)
                      |.+.|+++.+.... +...  ...++..+...|++++|..+|+++.+.  .|+..             |++++|.+.|++
T Consensus       149 A~~~l~~~~~~~p~-~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~  225 (291)
T 3mkr_A          149 ARKELKKMQDQDED-ATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQE  225 (291)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhhCcC-cHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888888776422 2111  112233444457888888888888765  23332             888888888888


Q ss_pred             HHHCCCCC-cHHHHHHHHHHhhcccCccc
Q 030489          146 MLRNGIMP-DGLLLSTLADYNLQSSGSQE  173 (176)
Q Consensus       146 m~~~g~~p-~~~~~~~l~~~~~~~g~~~~  173 (176)
                      ..+.  .| +..++..+...+...|+.++
T Consensus       226 al~~--~p~~~~~l~~l~~~~~~~g~~~e  252 (291)
T 3mkr_A          226 ALDK--DSGHPETLINLVVLSQHLGKPPE  252 (291)
T ss_dssp             HHHH--CTTCHHHHHHHHHHHHHTTCCHH
T ss_pred             HHHh--CCCCHHHHHHHHHHHHHcCCCHH
Confidence            7754  33 45577777777777777654

>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=99.58  E-value=2.9e-13  Score=95.50  Aligned_cols=110  Identities=19%  Similarity=0.115  Sum_probs=57.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC--------
Q 030489           62 SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA--------  133 (176)
Q Consensus        62 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--------  133 (176)
                      ..++..+...+.+.|++++|...|++..+..+. +..+|..+...|.+.|++++|...+++.....  |+..        
T Consensus       217 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~l~~  293 (368)
T 1fch_A          217 PDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ--PGYIRSRYNLGI  293 (368)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHH
Confidence            344444555555555555555555555554322 44555555555555555555555555554432  2211        


Q ss_pred             -----CChHHHHHHHHHHHHCCCCC----------cHHHHHHHHHHhhcccCcccc
Q 030489          134 -----GRPTEAMQLYDSMLRNGIMP----------DGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 -----~~~~~a~~~~~~m~~~g~~p----------~~~~~~~l~~~~~~~g~~~~A  174 (176)
                           |++++|...|++..+.....          ...++..+..++...|+.++|
T Consensus       294 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  349 (368)
T 1fch_A          294 SCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAY  349 (368)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhH
Confidence                 66666666666665321100          135566666666666666554

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.58  E-value=5.9e-13  Score=85.44  Aligned_cols=150  Identities=14%  Similarity=0.162  Sum_probs=127.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.+.|++++|++.|++..+.. |-+..+|..+..+|.+.|++++|+..+......... +...+..+...+...++++.|
T Consensus        15 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a   92 (184)
T 3vtx_A           15 KRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGSANFMIDEKQAA   92 (184)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHHHHHHcCCHHHH
Confidence            567899999999999998875 347899999999999999999999999998876433 667777788889999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~  148 (176)
                      .+.+.+..+..+. +...+..+...|.+.|++++|++.|++..+..  |+..             |++++|++.|++..+
T Consensus        93 ~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  169 (184)
T 3vtx_A           93 IDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIK--PGFIRAYQSIGLAYEGKGLRDEAVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhc--chhhhHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            9999999988654 88899999999999999999999999988753  3333             999999999999987


Q ss_pred             CCCCCcHHHH
Q 030489          149 NGIMPDGLLL  158 (176)
Q Consensus       149 ~g~~p~~~~~  158 (176)
                      .  .|+...|
T Consensus       170 ~--~p~~a~~  177 (184)
T 3vtx_A          170 K--EEKKAKY  177 (184)
T ss_dssp             T--THHHHHH
T ss_pred             C--CccCHHH
Confidence            5  5655433

>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=99.58  E-value=5.7e-13  Score=94.00  Aligned_cols=168  Identities=15%  Similarity=0.088  Sum_probs=126.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|...|+++.+.. +.+..+|..+..++...|++++|+..|+++.+.. +.+..++..+..++...|++++|
T Consensus        74 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A  151 (368)
T 1fch_A           74 RLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQA  151 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            456788888888888888774 4477888888888888888888888888887764 33677788888888888888888


Q ss_pred             HHHHHHHHhcCCC-----------------------------------------------C---cHHHHHHHHHHHHhcC
Q 030489           82 TMMFSKMLEKGPK-----------------------------------------------A---NVVTYSCLIDGYFKSQ  111 (176)
Q Consensus        82 ~~~~~~~~~~~~~-----------------------------------------------~---~~~~~~~l~~~~~~~g  111 (176)
                      .+.++++.+....                                               |   +..++..+...|.+.|
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            8888776654321                                               1   4667777888888888


Q ss_pred             CHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          112 NMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       112 ~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ++++|...+++.....  |+..             |++++|...|+++.+.. +.+...+..+...+.+.|++++|
T Consensus       232 ~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A  304 (368)
T 1fch_A          232 EYDKAVDCFTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREA  304 (368)
T ss_dssp             CHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHH
Confidence            8888888888876642  3322             88888888888887642 23466778888888888887765

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.56  E-value=8.1e-13  Score=91.15  Aligned_cols=160  Identities=11%  Similarity=0.139  Sum_probs=129.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC-hhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN-SITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~   80 (176)
                      |...|+++.|+..++.   . -+|+..++..+...+...++.++|++.++++...+..|+ ...+..+...+...|++++
T Consensus        44 yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~  119 (291)
T 3mkr_A           44 YLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDA  119 (291)
T ss_dssp             HHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHH
Confidence            5678899998876644   2 366788888999999999999999999999887765454 4555666688899999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---------------CChHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA---------------GRPTEAMQLYDS  145 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------------~~~~~a~~~~~~  145 (176)
                      |.+.+++      +.+..++..+...|.+.|++++|.+.++++....  |+..               |++++|..+|++
T Consensus       120 Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~  191 (291)
T 3mkr_A          120 ALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQE  191 (291)
T ss_dssp             HHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHH
T ss_pred             HHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            9999987      4578889999999999999999999999988764  3332               789999999999


Q ss_pred             HHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          146 MLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       146 m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +.+. .+.+...++.+..++.+.|++++|
T Consensus       192 ~l~~-~p~~~~~~~~la~~~~~~g~~~eA  219 (291)
T 3mkr_A          192 MADK-CSPTLLLLNGQAACHMAQGRWEAA  219 (291)
T ss_dssp             HHHH-SCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHh-CCCcHHHHHHHHHHHHHcCCHHHH
Confidence            9865 345677888899999999998876

>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=99.56  E-value=1.2e-12  Score=87.76  Aligned_cols=154  Identities=16%  Similarity=0.070  Sum_probs=128.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc-ChhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP-NSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~   80 (176)
                      |.+.|++++|.+.|+++.+.. +.+..++..+...+...|++++|+++++++...+..| +...+..+..++...|++++
T Consensus        81 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  159 (252)
T 2ho1_A           81 FQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQ  159 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHH
Confidence            567899999999999998775 3478899999999999999999999999998733344 56778888899999999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSML  147 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~  147 (176)
                      |.+.|++..+.... +..++..+...|...|++++|...+++.....  |+..             |+.++|.++++++.
T Consensus       160 A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~  236 (252)
T 2ho1_A          160 AKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVPARQYYDLFAQGG--GQNARSLLLGIRLAKVFEDRDTAASYGLQLK  236 (252)
T ss_dssp             HHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            99999999987644 78899999999999999999999999987643  3322             99999999999998


Q ss_pred             HCCCCCcHHHHHHH
Q 030489          148 RNGIMPDGLLLSTL  161 (176)
Q Consensus       148 ~~g~~p~~~~~~~l  161 (176)
                      +.  .|+...+..+
T Consensus       237 ~~--~p~~~~~~~~  248 (252)
T 2ho1_A          237 RL--YPGSLEYQEF  248 (252)
T ss_dssp             HH--CTTSHHHHHH
T ss_pred             HH--CCCCHHHHHH
Confidence            75  4655554443

>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=99.55  E-value=4.9e-13  Score=92.80  Aligned_cols=168  Identities=15%  Similarity=0.111  Sum_probs=141.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCC-ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +.+.|++++|..+++++.+.. +.+...|..+...+...| ++++|++.|++..+.. +.+...+..+...+...|++++
T Consensus        66 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~  143 (330)
T 3hym_B           66 LVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQ  143 (330)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHH
T ss_pred             HHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHH
Confidence            457899999999999998874 447888999999999999 9999999999998764 3367788999999999999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSML  147 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~  147 (176)
                      |.+.|++..+.... +..++..+...|...|++++|...+++.....  |+..             |++++|...+++..
T Consensus       144 A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  220 (330)
T 3hym_B          144 AMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALSIA--PEDPFVMHEVGVVAFQNGEWKTAEKWFLDAL  220 (330)
T ss_dssp             HHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            99999999988644 66778889999999999999999999988753  3333             99999999999988


Q ss_pred             HCC--------CCCcHHHHHHHHHHhhcccCcccc
Q 030489          148 RNG--------IMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       148 ~~g--------~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +..        ......++..+...+...|+.++|
T Consensus       221 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          221 EKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            531        123356888999999999998876

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.55  E-value=1.5e-13  Score=97.20  Aligned_cols=169  Identities=14%  Similarity=0.097  Sum_probs=135.0

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-----------------------
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-----------------------   58 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-----------------------   58 (176)
                      |.+.|++++|++.|++..+.. +.+..+|..+..+|...|++++|+..|+++.+...                       
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            456788999999998888764 34678888888888888888888888887754210                       


Q ss_pred             -------------------Cc---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHH
Q 030489           59 -------------------KP---NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSA  116 (176)
Q Consensus        59 -------------------~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  116 (176)
                                         .|   +..++..+...+...|++++|.+.|++..+..+. +..+|..+..+|.+.|++++|
T Consensus       188 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A  266 (365)
T 4eqf_A          188 VDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPE-DYSLWNRLGATLANGDRSEEA  266 (365)
T ss_dssp             -CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHH
Confidence                               12   5778888999999999999999999999988644 788999999999999999999


Q ss_pred             HHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCC---C--------CcHHHHHHHHHHhhcccCcc
Q 030489          117 FDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGI---M--------PDGLLLSTLADYNLQSSGSQ  172 (176)
Q Consensus       117 ~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~---~--------p~~~~~~~l~~~~~~~g~~~  172 (176)
                      ...|++.....  |+..             |++++|...|++..+...   .        .+...+..+..++...|+.+
T Consensus       267 ~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  344 (365)
T 4eqf_A          267 VEAYTRALEIQ--PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPE  344 (365)
T ss_dssp             HHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHhcC--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHH
Confidence            99999988753  3333             999999999999984311   1        13567888888888888876


Q ss_pred             cc
Q 030489          173 EH  174 (176)
Q Consensus       173 ~A  174 (176)
                      +|
T Consensus       345 ~a  346 (365)
T 4eqf_A          345 LF  346 (365)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.54  E-value=6.7e-13  Score=92.97  Aligned_cols=170  Identities=16%  Similarity=0.181  Sum_probs=137.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|+.+.+.. +.+..++..+...+...|++++|+..+++..+.. +.+...+..+..++...|++++|
T Consensus        13 ~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A   90 (359)
T 3ieg_A           13 LLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEA   90 (359)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHH
Confidence            467899999999999998864 4478899999999999999999999999988764 23668888899999999999999


Q ss_pred             HHHHHHHHhcCCC--CcHHHHHHH------------HHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CCh
Q 030489           82 TMMFSKMLEKGPK--ANVVTYSCL------------IDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRP  136 (176)
Q Consensus        82 ~~~~~~~~~~~~~--~~~~~~~~l------------~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~  136 (176)
                      ...|++..+..+.  .+...+..+            ...+...|++++|..+++++..........           |++
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (359)
T 3ieg_A           91 EDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELRELRAECFIKEGEP  170 (359)
T ss_dssp             HHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCH
Confidence            9999999887530  255555555            578899999999999999987653221111           999


Q ss_pred             HHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          137 TEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       137 ~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ++|...+++..+.. +.+..++..+...+...|++++|
T Consensus       171 ~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  207 (359)
T 3ieg_A          171 RKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELS  207 (359)
T ss_dssp             HHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            99999999998652 34567888888999998888765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.54  E-value=2.4e-12  Score=94.47  Aligned_cols=169  Identities=14%  Similarity=0.073  Sum_probs=135.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|++.|+++.+.+  |+..+|..+..++.+.|++++|+..++++.+.+ +.+..++..+..++.+.|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   92 (514)
T 2gw1_A           16 FFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADA   92 (514)
T ss_dssp             HHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHH
Confidence            567899999999999999874  689999999999999999999999999998865 33677899999999999999999


Q ss_pred             HHHHHHHHhcCCCC------------------------------------------------------------------
Q 030489           82 TMMFSKMLEKGPKA------------------------------------------------------------------   95 (176)
Q Consensus        82 ~~~~~~~~~~~~~~------------------------------------------------------------------   95 (176)
                      ...|+++.+.+...                                                                  
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  172 (514)
T 2gw1_A           93 MFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFK  172 (514)
T ss_dssp             HHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSC
T ss_pred             HHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcC
Confidence            99999987665311                                                                  


Q ss_pred             ------------cHHHHHHHHHHHHh---cCCHHHHHHHHHHHHH-----CCCCCCCC--------------------CC
Q 030489           96 ------------NVVTYSCLIDGYFK---SQNMKSAFDVYEEMCE-----NNISPNIA--------------------GR  135 (176)
Q Consensus        96 ------------~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~-----~~~~~~~~--------------------~~  135 (176)
                                  +...+......+..   .|++++|..+++++..     ....|+..                    |+
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  252 (514)
T 2gw1_A          173 PELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKND  252 (514)
T ss_dssp             CCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCC
Confidence                        12333333333443   7999999999999887     43333331                    99


Q ss_pred             hHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCccccC
Q 030489          136 PTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHC  175 (176)
Q Consensus       136 ~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  175 (176)
                      +++|..+++++.+..  |+...+..+...+...|++++|.
T Consensus       253 ~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~  290 (514)
T 2gw1_A          253 PLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYY  290 (514)
T ss_dssp             HHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGG
T ss_pred             HHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999998763  44778888999999999988873

>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=99.54  E-value=1.5e-12  Score=90.25  Aligned_cols=60  Identities=15%  Similarity=0.187  Sum_probs=28.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        65 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +..+...+.+.|++++|.+.+++..+.... +..+|..+...|...|++++|...+++..+
T Consensus       175 ~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  234 (327)
T 3cv0_A          175 HASLGVLYNLSNNYDSAAANLRRAVELRPD-DAQLWNKLGATLANGNRPQEALDAYNRALD  234 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334444444455555555555554444322 344455555555555555555555554443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.53  E-value=1.9e-12  Score=90.63  Aligned_cols=169  Identities=12%  Similarity=0.098  Sum_probs=134.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.++++.+.+.. +.+..++..+...+...|++++|+..++...+.. +.+..++..+...+...|++++|
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            456789999999999998764 4478889999999999999999999999988764 34778888899999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHH------------HHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---------------C
Q 030489           82 TMMFSKMLEKGPKANVVTYSC------------LIDGYFKSQNMKSAFDVYEEMCENNISPNIA---------------G  134 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~------------l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------------~  134 (176)
                      .+.|++..+.... +...+..            +...+.+.|++++|...+++...........               |
T Consensus       208 ~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~  286 (359)
T 3ieg_A          208 LSEVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDE  286 (359)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHcc
Confidence            9999999877543 4444443            2667888999999999999887654321100               9


Q ss_pred             ChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          135 RPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       135 ~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ++++|.+.+++..+.. +.+..++..+...+...|++++|
T Consensus       287 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A  325 (359)
T 3ieg_A          287 KPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEA  325 (359)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999998652 23567888888999999988776

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.53  E-value=2.1e-12  Score=87.53  Aligned_cols=165  Identities=15%  Similarity=0.142  Sum_probs=136.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChh----hHHHHHHHHHhcCC
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI----TFTILIDAFCKEGR   77 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~ll~~~~~~~~   77 (176)
                      +.+.|++++|++.|++..+.. +.+...+..+..++...|++++|+..+++..+.+  ++..    .|..+...+...|+
T Consensus        13 ~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~lg~~~~~~~~   89 (272)
T 3u4t_A           13 LFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKV--NATKAKSADFEYYGKILMKKGQ   89 (272)
T ss_dssp             HHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTS--CTTTCCHHHHHHHHHHHHHTTC
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcc--CchhHHHHHHHHHHHHHHHccc
Confidence            467899999999999999875 3366689999999999999999999999998843  3333    37889999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHH
Q 030489           78 MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYD  144 (176)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~  144 (176)
                      +++|.+.|++..+.... +..+|..+...|...|++++|...+++..+.  .|...             +++++|.+.|+
T Consensus        90 ~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  166 (272)
T 3u4t_A           90 DSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVKADSSFV  166 (272)
T ss_dssp             HHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999988654 7789999999999999999999999988664  34333             79999999999


Q ss_pred             HHHHCCCCCc-HHHHHHHHHHhhcccC---cccc
Q 030489          145 SMLRNGIMPD-GLLLSTLADYNLQSSG---SQEH  174 (176)
Q Consensus       145 ~m~~~g~~p~-~~~~~~l~~~~~~~g~---~~~A  174 (176)
                      +..+.  .|+ ...+..+...+...|+   .++|
T Consensus       167 ~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A  198 (272)
T 3u4t_A          167 KVLEL--KPNIYIGYLWRARANAAQDPDTKQGLA  198 (272)
T ss_dssp             HHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTT
T ss_pred             HHHHh--CccchHHHHHHHHHHHHcCcchhhHHH
Confidence            99865  344 5666777777777776   5544

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.53  E-value=4.9e-13  Score=88.36  Aligned_cols=145  Identities=19%  Similarity=0.185  Sum_probs=127.2

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      |++...+..+...+.+.|++++|+..|++..+... .+...+..+..++.+.|++++|...|++..+..+. +...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENP-QDPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHH
Confidence            56778899999999999999999999999987653 37788889999999999999999999999988755 88899999


Q ss_pred             HHHHHhc-----------CCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCCCCcHHHHH
Q 030489          104 IDGYFKS-----------QNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGIMPDGLLLS  159 (176)
Q Consensus       104 ~~~~~~~-----------g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~~p~~~~~~  159 (176)
                      ..+|.+.           |++++|+..+++..+..  |+..             |++++|+..|++..+..  .+...+.
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~  155 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN--PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRS  155 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHH
Confidence            9999999           99999999999988753  4433             99999999999999776  6788899


Q ss_pred             HHHHHhhcccCcccc
Q 030489          160 TLADYNLQSSGSQEH  174 (176)
Q Consensus       160 ~l~~~~~~~g~~~~A  174 (176)
                      .+..++...|+.++|
T Consensus       156 ~la~~~~~~g~~~~A  170 (217)
T 2pl2_A          156 ALAELYLSMGRLDEA  170 (217)
T ss_dssp             HHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHcCCHHHH
Confidence            999999999998876

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.52  E-value=2.9e-12  Score=84.21  Aligned_cols=156  Identities=17%  Similarity=0.073  Sum_probs=128.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhC-CChhHHHHHHHHHHhCCCCc-ChhhHHHHHHHHHhcCCHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSL-NRLDEAVQLFEKLTCVQLKP-NSITFTILIDAFCKEGRMD   79 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~   79 (176)
                      |...|++++|.+.+++..+.. +.+..++..+...+... |++++|+..++++.+.+..| +...+..+..++...|+++
T Consensus        52 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  130 (225)
T 2vq2_A           52 YQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFG  130 (225)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHH
Confidence            467899999999999998764 44788999999999999 99999999999998832233 3677888899999999999


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHH
Q 030489           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSM  146 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m  146 (176)
                      +|...+++..+.... +...+..+...|.+.|++++|...+++....... +..             |+.+.+..+++.+
T Consensus       131 ~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  208 (225)
T 2vq2_A          131 LAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQLGDADYYFKKYQSRVEV-LQADDLLLGWKIAKALGNAQAAYEYEAQL  208 (225)
T ss_dssp             HHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            999999999987544 7889999999999999999999999998765320 222             9999999999998


Q ss_pred             HHCCCCCcHHHHHHHH
Q 030489          147 LRNGIMPDGLLLSTLA  162 (176)
Q Consensus       147 ~~~g~~p~~~~~~~l~  162 (176)
                      .+.  .|+...+..++
T Consensus       209 ~~~--~p~~~~~~~~l  222 (225)
T 2vq2_A          209 QAN--FPYSEELQTVL  222 (225)
T ss_dssp             HHH--CTTCHHHHHHH
T ss_pred             HHh--CCCCHHHHHHh
Confidence            754  56655554443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.51  E-value=1.2e-12  Score=88.76  Aligned_cols=144  Identities=14%  Similarity=0.039  Sum_probs=109.9

Q ss_pred             hhhCChhHHHHHHHHHhhCCC---CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHH
Q 030489            3 IKECHLDAALKLFGQLTDRGL---EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD   79 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   79 (176)
                      ...|++++|++.|+++.+...   +.+..+|..+...+...|++++|+..|++..+.. +.+..++..+...+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            346788899999998887632   2256778888888999999999999998888764 236778888888899999999


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC----------CChHHHHHHHHHHHH
Q 030489           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA----------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----------~~~~~a~~~~~~m~~  148 (176)
                      +|...|++..+.... +..++..+...|.+.|++++|...++++..........          |++++|...+++...
T Consensus        95 ~A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           95 AAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            999999988887543 67888888889999999999999998887643222111          667777777755543

>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=99.50  E-value=5.3e-12  Score=87.46  Aligned_cols=168  Identities=16%  Similarity=0.095  Sum_probs=119.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|..+|+++.+.. +.+..++..+..++...|++++|++.+++..+.. +.+..++..+...+...|++++|
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            345677888888887777654 3366777777777788888888888887777653 23566666777777777777777


Q ss_pred             HHHHHHHHhcCC------------------------------------------------CCcHHHHHHHHHHHHhcCCH
Q 030489           82 TMMFSKMLEKGP------------------------------------------------KANVVTYSCLIDGYFKSQNM  113 (176)
Q Consensus        82 ~~~~~~~~~~~~------------------------------------------------~~~~~~~~~l~~~~~~~g~~  113 (176)
                      .+.+++..+...                                                +.+..++..+...|.+.|++
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  188 (327)
T 3cv0_A          109 LASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNY  188 (327)
T ss_dssp             HHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccH
Confidence            666666543211                                                22567778888888888999


Q ss_pred             HHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          114 KSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       114 ~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ++|...+++.....  |+..             |++++|.+.+++..+.. +.+...+..+...+...|++++|
T Consensus       189 ~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A  259 (327)
T 3cv0_A          189 DSAAANLRRAVELR--PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLA  259 (327)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHH
Confidence            99998888887643  3222             88999999998887642 23466788888888888887765

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.50  E-value=3.1e-12  Score=81.50  Aligned_cols=143  Identities=20%  Similarity=0.164  Sum_probs=120.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|+++.+.. +.+..++..+...+...|++++|+..+++..+.. +.+...+..+...+...|++++|
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            457899999999999988764 4478889999999999999999999999988764 33677888889999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~  148 (176)
                      .+.+++..+... .+...+..+...|...|++++|...+++.....  |...             |++++|.+.+++..+
T Consensus        96 ~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  172 (186)
T 3as5_A           96 VPLLIKVAEANP-INFNVRFRLGVALDNLGRFDEAIDSFKIALGLR--PNEGKVHRAIAFSYEQMGRHEEALPHFKKANE  172 (186)
T ss_dssp             HHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCc-HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999988754 478889999999999999999999999987653  2222             889999999888874


Q ss_pred             C
Q 030489          149 N  149 (176)
Q Consensus       149 ~  149 (176)
                      .
T Consensus       173 ~  173 (186)
T 3as5_A          173 L  173 (186)
T ss_dssp             H
T ss_pred             c
Confidence            3

>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=99.50  E-value=4.6e-12  Score=76.48  Aligned_cols=122  Identities=20%  Similarity=0.342  Sum_probs=105.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.++|+++.+.+ +.+...+..+...+...|++++|..+++++...+ +.+...+..+...+...|++++|
T Consensus        11 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A   88 (136)
T 2fo7_A           11 YYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEA   88 (136)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHhcCHHHH
Confidence            467899999999999998764 3478888999999999999999999999988764 33677888889999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+.++++.+.... +..++..+...+.+.|++++|...++++...
T Consensus        89 ~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           89 IEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            9999999887543 7788999999999999999999999988764

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.49  E-value=3.7e-12  Score=84.76  Aligned_cols=148  Identities=17%  Similarity=0.175  Sum_probs=126.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|++..+.. +.+..++..+...+...|++++|++.+++..+.. +.+...+..+...+.+.|++++|
T Consensus        67 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A  144 (243)
T 2q7f_A           67 LSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLA  144 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHH
Confidence            467899999999999998774 4478999999999999999999999999988764 34678888899999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~  148 (176)
                      ...+++..+.... +...+..+...|.+.|++++|...+++.....  |+..             |++++|.+.+++..+
T Consensus       145 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  221 (243)
T 2q7f_A          145 LPYLQRAVELNEN-DTEARFQFGMCLANEGMLDEALSQFAAVTEQD--PGHADAFYNAGVTYAYKENREKALEMLDKAID  221 (243)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHc
Confidence            9999999987544 78899999999999999999999999987653  2222             999999999999987


Q ss_pred             CCCCCcHH
Q 030489          149 NGIMPDGL  156 (176)
Q Consensus       149 ~g~~p~~~  156 (176)
                      .  .|+..
T Consensus       222 ~--~p~~~  227 (243)
T 2q7f_A          222 I--QPDHM  227 (243)
T ss_dssp             H--CTTCH
T ss_pred             c--CcchH
Confidence            5  44433

>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=99.48  E-value=2.2e-12  Score=95.25  Aligned_cols=169  Identities=16%  Similarity=0.115  Sum_probs=120.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|+...+.. +.+..+|..+...+...|++++|+..+++..+... .+..++..+..++...|++++|
T Consensus       286 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A  363 (537)
T 3fp2_A          286 LADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP-ENVYPYIQLACLLYKQGKFTES  363 (537)
T ss_dssp             TCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHH
Confidence            445677888888888777654 33677777888888888888888888887776532 2456777777888888888888


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC----C-----------------------C
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI----A-----------------------G  134 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~-----------------------~  134 (176)
                      ...+++..+.... +..++..+...|...|++++|...+++..........    .                       |
T Consensus       364 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  442 (537)
T 3fp2_A          364 EAFFNETKLKFPT-LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEE  442 (537)
T ss_dssp             HHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHH
T ss_pred             HHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHh
Confidence            8888888776533 6677888888888888888888888876543211111    0                       6


Q ss_pred             ChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          135 RPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       135 ~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ++++|...|++..+.. +.+...+..+...+...|+.++|
T Consensus       443 ~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A  481 (537)
T 3fp2_A          443 KFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEA  481 (537)
T ss_dssp             HHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHH
Confidence            6778888888887542 23456778888888888887765

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.48  E-value=2.4e-12  Score=87.21  Aligned_cols=169  Identities=13%  Similarity=-0.039  Sum_probs=126.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|++..+.. +.+..+|..+...+...|++++|+..|++..+.. +.+..++..+..++.+.|++++|
T Consensus        53 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A  130 (275)
T 1xnf_A           53 YDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLA  130 (275)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHH
Confidence            457899999999999998875 4478999999999999999999999999998864 23678889999999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC----------CChHHHHHHHHHHHHCCC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA----------GRPTEAMQLYDSMLRNGI  151 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----------~~~~~a~~~~~~m~~~g~  151 (176)
                      ...|+++.+...  +.......+..+...|++++|...+++...........          ++.++|++.+.+......
T Consensus       131 ~~~~~~a~~~~~--~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  208 (275)
T 1xnf_A          131 QDDLLAFYQDDP--NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNT  208 (275)
T ss_dssp             HHHHHHHHHHCT--TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHH
T ss_pred             HHHHHHHHHhCC--CChHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhcccc
Confidence            999999998753  33344445556677799999999998776543222111          556667777766654311


Q ss_pred             C--C-cHHHHHHHHHHhhcccCcccc
Q 030489          152 M--P-DGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       152 ~--p-~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .  | +..++..+...+.+.|+.++|
T Consensus       209 ~~~~~~~~~~~~la~~~~~~g~~~~A  234 (275)
T 1xnf_A          209 SLAEHLSETNFYLGKYYLSLGDLDSA  234 (275)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cccccccHHHHHHHHHHHHcCCHHHH
Confidence            1  0 135666677777777776655

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.47  E-value=7.8e-12  Score=80.14  Aligned_cols=146  Identities=16%  Similarity=0.094  Sum_probs=124.5

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +..+|..+...|.+.|++++|++.|++..+.... +..++..+..+|.+.|++++|...++........ +...+..+..
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            6788999999999999999999999998887533 7788999999999999999999999999988655 7888888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          106 GYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .+...++++.+...+.+...........           |++++|++.|++..+.. +-+..++..+..++.+.|+.++|
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHH
Confidence            9999999999999999987643222111           99999999999998752 23467888999999999998876

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.46  E-value=1.2e-12  Score=90.09  Aligned_cols=147  Identities=18%  Similarity=0.189  Sum_probs=115.4

Q ss_pred             chhhCChhHHHHHHHHHhhC-------CCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC------C-CCcChhhHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR-------GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV------Q-LKPNSITFTI   67 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~-~~~~~~~~~~   67 (176)
                      +...|++++|..+|+++.+.       ..+....++..+...|...|++++|+..+++....      + .+....++..
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            46789999999999998873       23445778889999999999999999999887753      2 2234567788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc------CC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------CCCCCCC-
Q 030489           68 LIDAFCKEGRMDDATMMFSKMLEK------GP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN------NISPNIA-  133 (176)
Q Consensus        68 ll~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~------~~~~~~~-  133 (176)
                      +...|...|++++|...+++..+.      +. +....++..+...|...|++++|..++++....      +..|... 
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            889999999999999999988764      22 234566888899999999999999999988653      1122211 


Q ss_pred             ------------CChHHHHHHHHHHHH
Q 030489          134 ------------GRPTEAMQLYDSMLR  148 (176)
Q Consensus       134 ------------~~~~~a~~~~~~m~~  148 (176)
                                  |++++|.++++++.+
T Consensus       197 ~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          197 TKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                        999999999988874

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.45  E-value=1.3e-12  Score=95.91  Aligned_cols=169  Identities=14%  Similarity=0.032  Sum_probs=140.0

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.++|+++.+..+.  ..++..+...+...|++++|+..+++..... +.+..++..+...+...|++++|
T Consensus       247 ~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  323 (514)
T 2gw1_A          247 KFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQA  323 (514)
T ss_dssp             HHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHH
Confidence            45789999999999999887533  8899999999999999999999999998764 33677889999999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHCC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRNG  150 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~g  150 (176)
                      ...|++..+.... +..++..+...|...|++++|...++++..........           |++++|...++++.+..
T Consensus       324 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  402 (514)
T 2gw1_A          324 GKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELE  402 (514)
T ss_dssp             HHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhh
Confidence            9999999987654 77899999999999999999999999987653221111           99999999999987532


Q ss_pred             C-CCc----HHHHHHHHHHhhc---ccCcccc
Q 030489          151 I-MPD----GLLLSTLADYNLQ---SSGSQEH  174 (176)
Q Consensus       151 ~-~p~----~~~~~~l~~~~~~---~g~~~~A  174 (176)
                      . .++    ...+..+...+..   .|++++|
T Consensus       403 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A  434 (514)
T 2gw1_A          403 NKLDGIYVGIAPLVGKATLLTRNPTVENFIEA  434 (514)
T ss_dssp             HTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHH
T ss_pred             hccchHHHHHHHHHHHHHHHhhhhhcCCHHHH
Confidence            1 122    3378888888888   8887765

>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=99.45  E-value=5.3e-12  Score=96.78  Aligned_cols=141  Identities=11%  Similarity=0.106  Sum_probs=116.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.+.|++++|++.|++..+.. +-+..+|+.+..+|.+.|++++|++.|++..+.... +...|..+..++.+.|++++|
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 KREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGNTLKEMQDVQGA   96 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHH
Confidence            567899999999999988774 336888999999999999999999999988876422 577888899999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSML  147 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~  147 (176)
                      .+.|++..+.... +..+|+.+..+|.+.|++++|++.|++..+.  .|+..             +++++|.+.+++..
T Consensus        97 ~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~A~~~~~kal  172 (723)
T 4gyw_A           97 LQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTDYDERMKKLV  172 (723)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHHHHHHHHHHH
Confidence            9999999888655 7888999999999999999999999988764  34433             77777777776665

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.44  E-value=1.7e-12  Score=95.23  Aligned_cols=167  Identities=11%  Similarity=-0.004  Sum_probs=137.7

Q ss_pred             chhhCCh-hHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhc-----
Q 030489            2 LIKECHL-DAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE-----   75 (176)
Q Consensus         2 ~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-----   75 (176)
                      |...|++ ++|++.|++..+.. +.+...|..+..+|.+.|++++|++.|++..+.  .|+...+..+...+...     
T Consensus       112 ~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~~~~~~~~~~~  188 (474)
T 4abn_A          112 LNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSMVLRQLQTDSG  188 (474)
T ss_dssp             HTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHHHHTTCCCSCH
T ss_pred             HHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHHHHHHhccCCh
Confidence            4567899 99999999998874 336889999999999999999999999999876  46678888889999999     


Q ss_pred             ----CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc--------CCHHHHHHHHHHHHHCCCC-CCCC---------
Q 030489           76 ----GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS--------QNMKSAFDVYEEMCENNIS-PNIA---------  133 (176)
Q Consensus        76 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~~~a~~~~~~m~~~~~~-~~~~---------  133 (176)
                          |++++|.+.|++..+.... +...|..+..+|...        |++++|+..|++....... ++..         
T Consensus       189 ~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~  267 (474)
T 4abn_A          189 DEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATL  267 (474)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHH
T ss_pred             hhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHH
Confidence                9999999999999988654 788999999999998        9999999999998875321 0222         


Q ss_pred             ----CChHHHHHHHHHHHHCCCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          134 ----GRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ----~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                          |++++|++.|++..+.  .|+ ...+..+...+...|+.++|
T Consensus       268 ~~~~g~~~~A~~~~~~al~l--~p~~~~a~~~l~~~~~~lg~~~eA  311 (474)
T 4abn_A          268 HKYEESYGEALEGFSQAAAL--DPAWPEPQQREQQLLEFLSRLTSL  311 (474)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHH
Confidence                9999999999999865  344 45667777777777766654

>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=99.44  E-value=1.4e-11  Score=81.63  Aligned_cols=123  Identities=11%  Similarity=0.096  Sum_probs=105.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|++..+...+++...+..+..++...|++++|+..+++..+.... +...+..+..++...|++++|
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            4578999999999999998765468888888999999999999999999999876433 667888899999999999999


Q ss_pred             HHHHHHHHhcCCCCcH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           82 TMMFSKMLEKGPKANV-------VTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+.|++..+..+. +.       ..|..+-..+...|++++|+..|++..+.
T Consensus        96 ~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  146 (228)
T 4i17_A           96 IATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV  146 (228)
T ss_dssp             HHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc
Confidence            9999999987544 55       56888888899999999999999998765

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.43  E-value=8.4e-12  Score=83.63  Aligned_cols=158  Identities=14%  Similarity=0.212  Sum_probs=126.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCC--cc----HHHHHHHHHHHHhCCChhHHHHHHHHHHhCC------------------
Q 030489            2 LIKECHLDAALKLFGQLTDRGLE--PD----IITYNTIICGYCSLNRLDEAVQLFEKLTCVQ------------------   57 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~------------------   57 (176)
                      +.+.|++++|.+.|++..+....  ++    ..+|..+...+...|++++|+..|++.....                  
T Consensus        48 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~  127 (258)
T 3uq3_A           48 EYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKK  127 (258)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHH
Confidence            56789999999999998875321  11    6889999999999999999999999988732                  


Q ss_pred             -------CCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 030489           58 -------LKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISP  130 (176)
Q Consensus        58 -------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  130 (176)
                             .+.+...+..+...+...|++++|...|++..+.... +..+|..+..+|.+.|++++|...+++..+..  |
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~  204 (258)
T 3uq3_A          128 AEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD--P  204 (258)
T ss_dssp             HHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T
T ss_pred             HHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--H
Confidence                   1224566778888999999999999999999988654 78899999999999999999999999988754  3


Q ss_pred             CCC-------------CChHHHHHHHHHHHHCC----CCCcHHHHHHHH
Q 030489          131 NIA-------------GRPTEAMQLYDSMLRNG----IMPDGLLLSTLA  162 (176)
Q Consensus       131 ~~~-------------~~~~~a~~~~~~m~~~g----~~p~~~~~~~l~  162 (176)
                      +..             |++++|.+.+++..+..    ..|+.......+
T Consensus       205 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l  253 (258)
T 3uq3_A          205 NFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLY  253 (258)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHH
Confidence            333             99999999999987542    226655444443

>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=99.41  E-value=1.7e-11  Score=94.03  Aligned_cols=145  Identities=19%  Similarity=0.245  Sum_probs=127.2

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      |-+..+|+.+...+.+.|++++|++.|++..+.... +..++..+..+|.+.|++++|++.|++..+.... +..+|..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            335789999999999999999999999999886432 6788999999999999999999999999998755 78999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCCCCc-HHHHHHHHHHhhccc
Q 030489          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSS  169 (176)
Q Consensus       104 ~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g  169 (176)
                      ..+|.+.|++++|++.|++..+.  .|+..             |++++|++.|++..+.  .|+ ...+..+..++...|
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g  159 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVC  159 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcc
Confidence            99999999999999999998875  34443             9999999999999975  455 568889999999999


Q ss_pred             Ccccc
Q 030489          170 GSQEH  174 (176)
Q Consensus       170 ~~~~A  174 (176)
                      ++++|
T Consensus       160 ~~~~A  164 (723)
T 4gyw_A          160 DWTDY  164 (723)
T ss_dssp             CCTTH
T ss_pred             cHHHH
Confidence            99886

>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=99.41  E-value=5.4e-14  Score=100.93  Aligned_cols=146  Identities=13%  Similarity=0.107  Sum_probs=46.0

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|++.|.+      .+|..+|..++.++...|++++|+.+++..++.  .+++.+.+.|+.+|.+.|+++++
T Consensus        42 ~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~  113 (449)
T 1b89_A           42 QLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAEL  113 (449)
T ss_dssp             ---------------------------------------------------------------------------CHHHH
T ss_pred             HHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHH
Confidence            4455566666666643      235556666666666666666666655444432  33455566666666666666666


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---------CChHHHHHHHHHHHHCCCC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA---------GRPTEAMQLYDSMLRNGIM  152 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------~~~~~a~~~~~~m~~~g~~  152 (176)
                      .++++       .|+..+|+.+...|...|.|++|..+|..+      ++..         |++++|.+.++++      
T Consensus       114 e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a------~n~~~LA~~L~~Lg~yq~AVea~~KA------  174 (449)
T 1b89_A          114 EEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------SNFGRLASTLVHLGEYQAAVDGARKA------  174 (449)
T ss_dssp             TTTTT-------CC----------------CTTTHHHHHHHT------TCHHHHHHHHHTTTCHHHHHHHHHHH------
T ss_pred             HHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh------hhHHHHHHHHHHhccHHHHHHHHHHc------
Confidence            65553       245567777777777777777777777755      1111         8899999999888      


Q ss_pred             CcHHHHHHHHHHhhcccCcccc
Q 030489          153 PDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       153 p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .++.+|..++.+|...|++++|
T Consensus       175 ~~~~~Wk~v~~aCv~~~ef~lA  196 (449)
T 1b89_A          175 NSTRTWKEVCFACVDGKEFRLA  196 (449)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CCchhHHHHHHHHHHcCcHHHH
Confidence            2678999999999999988776

>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=99.40  E-value=8.3e-11  Score=79.95  Aligned_cols=114  Identities=18%  Similarity=0.210  Sum_probs=56.8

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHh----CCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh----c
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----E   75 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~   75 (176)
                      +.|++++|.+.|++..+.   -+..++..+...|..    .+++++|+..|++..+.+   +...+..+...|..    .
T Consensus        18 ~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~   91 (273)
T 1ouv_A           18 KEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVS   91 (273)
T ss_dssp             HTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSC
T ss_pred             hCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcc
Confidence            345555555555555442   133444455555555    555555555555554443   34444445555555    5


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHC
Q 030489           76 GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~  126 (176)
                      +++++|.+.|++..+.+   +..++..+...|..    .+++++|+..|++..+.
T Consensus        92 ~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~  143 (273)
T 1ouv_A           92 QNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL  143 (273)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT
T ss_pred             cCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc
Confidence            55555555555554442   34445555555555    55555555555554443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.40  E-value=5.4e-11  Score=82.50  Aligned_cols=161  Identities=13%  Similarity=0.224  Sum_probs=124.0

Q ss_pred             hHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC-hh-hHHHHHHHHHhcCCHHHHHHHHH
Q 030489            9 DAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN-SI-TFTILIDAFCKEGRMDDATMMFS   86 (176)
Q Consensus         9 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~-~~~~ll~~~~~~~~~~~a~~~~~   86 (176)
                      ++|..+|++..+.-.+-+...|..+...+.+.|++++|..+|++..+.  .|+ .. .|..+...+.+.|++++|..+|+
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  158 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            899999999988412346779999999999999999999999999875  444 33 78889999999999999999999


Q ss_pred             HHHhcCCCCcHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCC-C
Q 030489           87 KMLEKGPKANVVTYSCLIDGYF-KSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNG-I  151 (176)
Q Consensus        87 ~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g-~  151 (176)
                      +..+... .+...|........ ..|++++|..+|++..+..  |+..             |+.++|..+|++..... +
T Consensus       159 ~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l  235 (308)
T 2ond_A          159 KAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCC
Confidence            9988754 35555554433322 3699999999999887642  3332             89999999999999763 4


Q ss_pred             CCc--HHHHHHHHHHhhcccCcccc
Q 030489          152 MPD--GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       152 ~p~--~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .|+  ...+..++....+.|+.+.|
T Consensus       236 ~p~~~~~l~~~~~~~~~~~g~~~~a  260 (308)
T 2ond_A          236 PPEKSGEIWARFLAFESNIGDLASI  260 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            553  55777788888888876654

>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=99.39  E-value=1.9e-10  Score=78.14  Aligned_cols=158  Identities=16%  Similarity=0.161  Sum_probs=132.7

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHh----CCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh----cC
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EG   76 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~   76 (176)
                      .+++++|.+.|++..+.+   +...+..+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+
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            789999999999998875   78888999999999    999999999999998875   67788888899998    99


Q ss_pred             CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCC-------------CCCChHHH
Q 030489           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNISPN-------------IAGRPTEA  139 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~~~-------------~~~~~~~a  139 (176)
                      ++++|.+.|++..+.+   +...+..+...|..    .+++++|...|++..+.+....             ..+++++|
T Consensus       129 ~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A  205 (273)
T 1ouv_A          129 DFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEA  205 (273)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCccHHHH
Confidence            9999999999999876   56788888888888    8999999999999877642110             02789999


Q ss_pred             HHHHHHHHHCCCCCcHHHHHHHHHHhhc----ccCcccc
Q 030489          140 MQLYDSMLRNGIMPDGLLLSTLADYNLQ----SSGSQEH  174 (176)
Q Consensus       140 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~----~g~~~~A  174 (176)
                      +..|++..+.+.   ...+..+...+..    .++.++|
T Consensus       206 ~~~~~~a~~~~~---~~a~~~l~~~~~~g~~~~~~~~~A  241 (273)
T 1ouv_A          206 LARYSKACELEN---GGGCFNLGAMQYNGEGVTRNEKQA  241 (273)
T ss_dssp             HHHHHHHHHTTC---HHHHHHHHHHHHTTSSSSCCSTTH
T ss_pred             HHHHHHHHhCCC---HHHHHHHHHHHHcCCCcccCHHHH
Confidence            999999987642   5667777777877    7887776

>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=99.39  E-value=1.6e-11  Score=87.73  Aligned_cols=163  Identities=13%  Similarity=0.079  Sum_probs=126.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCC-hhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNR-LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +.+.|++++|++.|++..+.. +-+..+|+.+..++...|+ +++|+..|++..+.... +...|+.+..++.+.|++++
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 LQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDPSQ  184 (382)
T ss_dssp             HHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTT
T ss_pred             HHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHccCHHH
Confidence            345788999999999988775 3378889999999999996 99999999998876533 67888888888999999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHH-----HHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEA-----MQLY  143 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a-----~~~~  143 (176)
                      |+..|++.++.+.. +..+|..+..++.+.|++++|+..++++...+......            |..++|     ++.+
T Consensus       185 Al~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~  263 (382)
T 2h6f_A          185 ELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYT  263 (382)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHH
Confidence            99999999988765 88889999999999999999999999887754322221            443666     4777


Q ss_pred             HHHHHCCCCCc-HHHHHHHHHHhhccc
Q 030489          144 DSMLRNGIMPD-GLLLSTLADYNLQSS  169 (176)
Q Consensus       144 ~~m~~~g~~p~-~~~~~~l~~~~~~~g  169 (176)
                      ++....  .|+ ...|..+...+...|
T Consensus       264 ~~Al~l--~P~~~~a~~~l~~ll~~~g  288 (382)
T 2h6f_A          264 LEMIKL--VPHNESAWNYLKGILQDRG  288 (382)
T ss_dssp             HHHHHH--STTCHHHHHHHHHHHTTTC
T ss_pred             HHHHHH--CCCCHHHHHHHHHHHHccC
Confidence            777754  444 446666666666665

>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=99.39  E-value=1.9e-11  Score=90.22  Aligned_cols=164  Identities=15%  Similarity=0.102  Sum_probs=130.3

Q ss_pred             CChhHHHHHHHHHhhCCCCcc-------HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCH
Q 030489            6 CHLDAALKLFGQLTDRGLEPD-------IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (176)
Q Consensus         6 ~~~~~a~~~~~~~~~~~~~~~-------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   78 (176)
                      |++++|..+|+.+.+..+. +       ..++..+...+...|++++|+..+++..+.  .|+..++..+...+...|++
T Consensus       216 ~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~  292 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENS  292 (537)
T ss_dssp             HHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCC
T ss_pred             HHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCH
Confidence            5788999999998876432 3       235777778888999999999999998876  45678888888999999999


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHH
Q 030489           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSML  147 (176)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~  147 (176)
                      ++|.+.|++..+.... +..+|..+...|...|++++|...+++...........           |++++|.++++++.
T Consensus       293 ~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  371 (537)
T 3fp2_A          293 QEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETK  371 (537)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999999887644 78889999999999999999999999987753221111           99999999999998


Q ss_pred             HCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          148 RNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       148 ~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +.. +.+...+..+...+...|++++|
T Consensus       372 ~~~-~~~~~~~~~l~~~~~~~g~~~~A  397 (537)
T 3fp2_A          372 LKF-PTLPEVPTFFAEILTDRGDFDTA  397 (537)
T ss_dssp             HHC-TTCTHHHHHHHHHHHHTTCHHHH
T ss_pred             HhC-CCChHHHHHHHHHHHHhCCHHHH
Confidence            652 23456788888889998888766

>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=99.38  E-value=3.6e-12  Score=86.45  Aligned_cols=145  Identities=19%  Similarity=0.170  Sum_probs=100.1

Q ss_pred             hhCChhHHHHHHHHHhhC-------CCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC------CC-CcChhhHHHHH
Q 030489            4 KECHLDAALKLFGQLTDR-------GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV------QL-KPNSITFTILI   69 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~~-~~~~~~~~~ll   69 (176)
                      ..|++++|+++|++..+.       ..+....++..+...|...|++++|+..+++....      +- +....++..+.
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            356666666666665542       22335677888888888888888888888877643      11 22455677788


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhc------C-CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------CCCCCCC---
Q 030489           70 DAFCKEGRMDDATMMFSKMLEK------G-PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN------NISPNIA---  133 (176)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~------~~~~~~~---  133 (176)
                      ..|...|++++|.+.|++..+.      . .+....++..+...|...|++++|...+++....      +..|...   
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            8888888888888888877654      1 1234567788888888888888888888877653      1111111   


Q ss_pred             ----------CChHHHHHHHHHHHH
Q 030489          134 ----------GRPTEAMQLYDSMLR  148 (176)
Q Consensus       134 ----------~~~~~a~~~~~~m~~  148 (176)
                                |++++|.+++++..+
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                      888888888887764

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.35  E-value=2.8e-11  Score=81.95  Aligned_cols=169  Identities=12%  Similarity=0.039  Sum_probs=131.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCc--cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEP--DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD   79 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   79 (176)
                      |.+.|++++|++.+++..+....+  ...+|..+...+...|++++|+..|++..+... .+..++..+...|...|+++
T Consensus        47 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~  125 (272)
T 3u4t_A           47 YYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFP  125 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHH
Confidence            567899999999999998843222  244589999999999999999999999987643 36678999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CC---hHHHHHHH
Q 030489           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GR---PTEAMQLY  143 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~---~~~a~~~~  143 (176)
                      +|.+.|++..+... .+..+|..+...+...+++++|...|++..+..  |+..             ++   .++|...+
T Consensus       126 ~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  202 (272)
T 3u4t_A          126 LAIQYMEKQIRPTT-TDPKVFYELGQAYYYNKEYVKADSSFVKVLELK--PNIYIGYLWRARANAAQDPDTKQGLAKPYY  202 (272)
T ss_dssp             HHHHHHGGGCCSSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHSTTCSSCTTHHHH
T ss_pred             HHHHHHHHHhhcCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHcCcchhhHHHHHHH
Confidence            99999999988754 377788888834444569999999999988753  3322             55   77788888


Q ss_pred             HHHHHCC-CCCc------HHHHHHHHHHhhcccCcccc
Q 030489          144 DSMLRNG-IMPD------GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       144 ~~m~~~g-~~p~------~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ++..+.. -.|+      ...|..+...+...|+.++|
T Consensus       203 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          203 EKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            8887431 1233      25777888889999988776

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.35  E-value=8.2e-11  Score=79.55  Aligned_cols=167  Identities=14%  Similarity=0.122  Sum_probs=124.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCcc---HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-C-cChhhHHHHHHHHHh--
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPD---IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-K-PNSITFTILIDAFCK--   74 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~-~~~~~~~~ll~~~~~--   74 (176)
                      +.+.|++++|.+.|+.+.+..+. +   ...+..+..++.+.|++++|+..|++..+... . .....+..+..++..  
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            45789999999999999987422 3   77888999999999999999999999987632 1 224567777888888  


Q ss_pred             ------cCCHHHHHHHHHHHHhcCCCCcHHHH-----------------HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 030489           75 ------EGRMDDATMMFSKMLEKGPKANVVTY-----------------SCLIDGYFKSQNMKSAFDVYEEMCENNISPN  131 (176)
Q Consensus        75 ------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  131 (176)
                            .|++++|...|+++.+..+. +....                 ..+...|.+.|++++|+..|+++........
T Consensus       104 ~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~  182 (261)
T 3qky_A          104 PPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTP  182 (261)
T ss_dssp             CCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTST
T ss_pred             ccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCc
Confidence                  99999999999999987543 33444                 5567889999999999999999987543322


Q ss_pred             CC------------------------CChHHHHHHHHHHHHCCCCCcHH----HHHHHHHHhhcccCcc
Q 030489          132 IA------------------------GRPTEAMQLYDSMLRNGIMPDGL----LLSTLADYNLQSSGSQ  172 (176)
Q Consensus       132 ~~------------------------~~~~~a~~~~~~m~~~g~~p~~~----~~~~l~~~~~~~g~~~  172 (176)
                      ..                        |++++|...|+++.+.  .|+..    ....+-..+...++.+
T Consensus       183 ~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~l~~~~~~~~~~~  249 (261)
T 3qky_A          183 WADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPDSPLLRTAEELYTRARQRLTELE  249 (261)
T ss_dssp             THHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHHHHhh
Confidence            21                        4568899999999865  45542    3444444554444443

>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=99.34  E-value=1.6e-10  Score=73.47  Aligned_cols=122  Identities=18%  Similarity=0.142  Sum_probs=107.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.++.+.+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|
T Consensus        52 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A  129 (186)
T 3as5_A           52 YVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEA  129 (186)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHH
Confidence            457899999999999998764 4478899999999999999999999999988764 34778888899999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      ...+++..+... .+..++..+...|...|++++|...+++..+.
T Consensus       130 ~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          130 IDSFKIALGLRP-NEGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            999999998754 37889999999999999999999999987653

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.33  E-value=6.7e-11  Score=77.57  Aligned_cols=153  Identities=18%  Similarity=0.185  Sum_probs=119.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHH----------------HHHHHHhCCChhHHHHHHHHHHhCCCCcChhhH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNT----------------IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITF   65 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~   65 (176)
                      +.+.|++++|+..|++..+.. |-+...|..                +..++.+.|++++|+..|++..+... -+...+
T Consensus        14 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~   91 (208)
T 3urz_A           14 AIEAGQNGQAVSYFRQTIALN-IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAP-NNVDCL   91 (208)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHH
Confidence            457899999999999998863 225666777                89999999999999999999988753 377889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC--HHHHHHHHHHHHHCCCCCCCC----------
Q 030489           66 TILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN--MKSAFDVYEEMCENNISPNIA----------  133 (176)
Q Consensus        66 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~a~~~~~~m~~~~~~~~~~----------  133 (176)
                      ..+..++...|++++|...|++..+..+. +..+|..+..+|...|+  .+.+...++...    .|+..          
T Consensus        92 ~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~a~~~~g~~  166 (208)
T 3urz_A           92 EACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAEQEKKKLETDYKKLS----SPTKMQYARYRDGLS  166 (208)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHC-------CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh----CCCchhHHHHHHHHH
Confidence            99999999999999999999999998755 88899999888876654  344555555443    22211          


Q ss_pred             ----CChHHHHHHHHHHHHCCCCCcHHHHHHHHH
Q 030489          134 ----GRPTEAMQLYDSMLRNGIMPDGLLLSTLAD  163 (176)
Q Consensus       134 ----~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~  163 (176)
                          |++++|...|++..+.  .|+......+..
T Consensus       167 ~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l~~  198 (208)
T 3urz_A          167 KLFTTRYEKARNSLQKVILR--FPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHHTHHHHHHHHHHHTTT--SCCHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHh--CCCHHHHHHHHH
Confidence                7899999999999864  788766555444

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.30  E-value=2.8e-10  Score=75.29  Aligned_cols=144  Identities=12%  Similarity=-0.002  Sum_probs=120.1

Q ss_pred             ccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHH
Q 030489           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (176)
Q Consensus        25 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (176)
                      .++..+......+...|++++|+..|++..+...+++...+..+..++...|++++|.+.|++..+..+. +..+|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            4678899999999999999999999999988765467888888999999999999999999999988655 788999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCC-------CC-----------CChHHHHHHHHHHHHCCCCCc---HHHHHHHHH
Q 030489          105 DGYFKSQNMKSAFDVYEEMCENNISPN-------IA-----------GRPTEAMQLYDSMLRNGIMPD---GLLLSTLAD  163 (176)
Q Consensus       105 ~~~~~~g~~~~a~~~~~~m~~~~~~~~-------~~-----------~~~~~a~~~~~~m~~~g~~p~---~~~~~~l~~  163 (176)
                      .+|...|++++|+..+++..+......       ..           |++++|++.|++..+.  .|+   ...+..+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            999999999999999999887543322       00           9999999999999865  666   456666777


Q ss_pred             HhhcccCc
Q 030489          164 YNLQSSGS  171 (176)
Q Consensus       164 ~~~~~g~~  171 (176)
                      .+...|+.
T Consensus       162 ~~~~~~~~  169 (228)
T 4i17_A          162 LFYNNGAD  169 (228)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77666554

>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=99.30  E-value=2.7e-10  Score=68.52  Aligned_cols=120  Identities=23%  Similarity=0.365  Sum_probs=98.9

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (176)
                      ..|..+...+...|++++|+.+++++.+.. +.+...+..+...+...|++++|...++++.+.+.. +...+..+...+
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~   79 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCC-chHHHHHHHHHH
Confidence            357788899999999999999999988764 336778888899999999999999999999987643 778899999999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCCC-----------CChHHHHHHHHHHHHC
Q 030489          108 FKSQNMKSAFDVYEEMCENNISPNIA-----------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus       108 ~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~~a~~~~~~m~~~  149 (176)
                      ...|++++|.+.++++..........           |++++|...++++.+.
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            99999999999999987653221111           8888888888887653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.30  E-value=3.4e-10  Score=78.48  Aligned_cols=163  Identities=11%  Similarity=0.089  Sum_probs=130.0

Q ss_pred             hHHHHHHHHHhhCCCCccHHHHHHHHHHHH-------hCCCh-------hHHHHHHHHHHhCCCCcChhhHHHHHHHHHh
Q 030489            9 DAALKLFGQLTDRGLEPDIITYNTIICGYC-------SLNRL-------DEAVQLFEKLTCVQLKPNSITFTILIDAFCK   74 (176)
Q Consensus         9 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-------~~~~~-------~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   74 (176)
                      ++|..+|++..+.. +.+...|..+...+.       +.|++       ++|..+|++..+.-.+-+...|..+...+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            68889999998864 458889988888876       35886       8999999999873123356689999999999


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCcHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC------------CCChHHHHH
Q 030489           75 EGRMDDATMMFSKMLEKGPKANVV-TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI------------AGRPTEAMQ  141 (176)
Q Consensus        75 ~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~------------~~~~~~a~~  141 (176)
                      .|++++|.++|++..+..+. +.. +|..+...+.+.|++++|..+|++..+.+.....            .|+.++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999986432 343 8999999999999999999999999875432111            188999999


Q ss_pred             HHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          142 LYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       142 ~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +|++..+.. .-+...+..++..+.+.|+.++|
T Consensus       191 ~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A  222 (308)
T 2ond_A          191 IFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNT  222 (308)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHH
Confidence            999998642 22467788888999999988765

>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=99.26  E-value=3.7e-10  Score=71.88  Aligned_cols=124  Identities=11%  Similarity=0.169  Sum_probs=102.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHH-HHhcCCH--
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDA-FCKEGRM--   78 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~~~~--   78 (176)
                      +...|++++|.+.++...+.. +.+...|..+...|...|++++|+..|++..+... .+...+..+..+ +...|++  
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            456789999999999988764 44789999999999999999999999999887642 366777778888 7889998  


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 030489           79 DDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        79 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  128 (176)
                      ++|...|++..+..+. +...+..+...|...|++++|...|++......
T Consensus        98 ~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  146 (177)
T 2e2e_A           98 AQTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDLNS  146 (177)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCC
Confidence            9999999999988654 788899999999999999999999999987643

>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=99.25  E-value=8.1e-11  Score=73.27  Aligned_cols=121  Identities=12%  Similarity=0.016  Sum_probs=100.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +...|++++|++.+....... +-+...+..+...|.+.|++++|++.|++..+... -+..+|..+..+|.+.|++++|
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCchHHH
Confidence            456788999999999887652 22456677899999999999999999999988753 3788899999999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHH-HHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDV-YEEMCE  125 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~-~~~m~~  125 (176)
                      ...|++..+..+. +..+|..+...|.+.|+++++.+. +++..+
T Consensus        85 ~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           85 VECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            9999999988655 788999999999999998876654 466554

>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=99.25  E-value=7.9e-10  Score=72.23  Aligned_cols=137  Identities=16%  Similarity=0.110  Sum_probs=110.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|++..    +|+..+|..+...+.+.|++++|+..|++..+.. +.+...+..+..++...|++++|
T Consensus        16 ~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A   90 (213)
T 1hh8_A           16 AADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLA   90 (213)
T ss_dssp             HHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHHHH
Confidence            457899999999998774    5688999999999999999999999999988764 33678888999999999999999


Q ss_pred             HHHHHHHHhcCCCC---------------cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKA---------------NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYD  144 (176)
Q Consensus        82 ~~~~~~~~~~~~~~---------------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~  144 (176)
                      .+.|++..+.....               ....+..+..+|.+.|++++|...|++........ ..+..+.++..+.
T Consensus        91 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~-~~~~~~~a~~~~~  167 (213)
T 1hh8_A           91 IKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP-RHSKIDKAMECVW  167 (213)
T ss_dssp             HHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG-GGGHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc-ccchHHHHHHHHH
Confidence            99999998764321               23788899999999999999999999987653221 1255555555554

>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=99.24  E-value=3.9e-10  Score=80.59  Aligned_cols=161  Identities=10%  Similarity=0.027  Sum_probs=131.7

Q ss_pred             chhhCC-hhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECH-LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +.+.|+ +++|+..|++..+..+ -+...|+.+..++...|++++|+..|++....... +...|..+..++.+.|++++
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 LKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDN  218 (382)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTT
T ss_pred             HHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHH
Confidence            456786 9999999999998753 38899999999999999999999999999987543 78889999999999999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHh-cCCHHHH-----HHHHHHHHHCCCCCCCC-------------C--ChHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFK-SQNMKSA-----FDVYEEMCENNISPNIA-------------G--RPTEA  139 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a-----~~~~~~m~~~~~~~~~~-------------~--~~~~a  139 (176)
                      |+..|+++++.++. +...|+.+..++.+ .|..++|     +..+++.....  |+..             |  +.++|
T Consensus       219 Al~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~--P~~~~a~~~l~~ll~~~g~~~~~~a  295 (382)
T 2h6f_A          219 ELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV--PHNESAWNYLKGILQDRGLSKYPNL  295 (382)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTTTCGGGCHHH
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHccCccchHHH
Confidence            99999999998765 89999999999999 6665777     47888776643  3332             4  68999


Q ss_pred             HHHHHHHHHCCCCCcHHHHHHHHHHhhccc
Q 030489          140 MQLYDSMLRNGIMPDGLLLSTLADYNLQSS  169 (176)
Q Consensus       140 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  169 (176)
                      ++.+.++ +. -..+...+..+...+.+.|
T Consensus       296 ~~~~~~~-~~-~p~~~~al~~La~~~~~~~  323 (382)
T 2h6f_A          296 LNQLLDL-QP-SHSSPYLIAFLVDIYEDML  323 (382)
T ss_dssp             HHHHHHH-TT-TCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHh-cc-CCCCHHHHHHHHHHHHHHh
Confidence            9999888 32 2334567778888887764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.23  E-value=2e-10  Score=84.29  Aligned_cols=160  Identities=13%  Similarity=0.040  Sum_probs=134.5

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCCh-hHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHH
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRL-DEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMF   85 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~   85 (176)
                      ++++++..++...... +.+...+..+...+...|++ ++|++.|++..+... -+...|..+..+|.+.|++++|.+.|
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3567777777766553 44789999999999999999 999999999887642 36788999999999999999999999


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhc---------CCHHHHHHHHHHHHHCCCCCCCC---------------------CC
Q 030489           86 SKMLEKGPKANVVTYSCLIDGYFKS---------QNMKSAFDVYEEMCENNISPNIA---------------------GR  135 (176)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~---------g~~~~a~~~~~~m~~~~~~~~~~---------------------~~  135 (176)
                      ++..+..  |+...+..+...|...         |++++|+..+++..+..  |+..                     |+
T Consensus       161 ~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          161 SGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD--VLDGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHhhccccch
Confidence            9999875  5578999999999999         99999999999987753  3322                     45


Q ss_pred             hHHHHHHHHHHHHCCCCC----cHHHHHHHHHHhhcccCcccc
Q 030489          136 PTEAMQLYDSMLRNGIMP----DGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       136 ~~~a~~~~~~m~~~g~~p----~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +++|++.|++..+.  .|    +...+..+..++...|++++|
T Consensus       237 ~~~A~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A  277 (474)
T 4abn_A          237 SQQALSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESYGEA  277 (474)
T ss_dssp             HHHHHHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCHHHH
Confidence            89999999999875  45    677889999999999998876

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.22  E-value=1.6e-09  Score=67.47  Aligned_cols=100  Identities=11%  Similarity=0.102  Sum_probs=89.4

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +...+..+...+.+.|++++|+..|++...... -+...|..+..+|...|++++|...|++..+..+. +...|..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDF-YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHH
Confidence            567788899999999999999999999988753 37888999999999999999999999999998765 7889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCC
Q 030489          106 GYFKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~~  127 (176)
                      +|.+.|++++|...|++.....
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            9999999999999999987754

>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=99.22  E-value=1.6e-10  Score=88.42  Aligned_cols=159  Identities=14%  Similarity=0.014  Sum_probs=129.7

Q ss_pred             hhCChhHHHHHHHHHh--------hCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhc
Q 030489            4 KECHLDAALKLFGQLT--------DRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE   75 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   75 (176)
                      ..|++++|++.+++..        +.. +.+...+..+..++.+.|++++|++.|++..+... -+...+..+..++...
T Consensus       403 ~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          403 VLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHH
T ss_pred             cccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHHc
Confidence            5789999999999988        442 44678899999999999999999999999887642 3678888899999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHH
Q 030489           76 GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQL  142 (176)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~  142 (176)
                      |++++|.+.|++..+.... +...|..+..+|.+.|++++ ++.|++..+.+  |+..             |++++|++.
T Consensus       481 g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN--DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC--CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999988655 78899999999999999999 99999988753  3333             999999999


Q ss_pred             HHHHHHCCCCCc-HHHHHHHHHHhhcccC
Q 030489          143 YDSMLRNGIMPD-GLLLSTLADYNLQSSG  170 (176)
Q Consensus       143 ~~~m~~~g~~p~-~~~~~~l~~~~~~~g~  170 (176)
                      |++..+.  .|+ ...+..+..++...++
T Consensus       557 ~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            9998864  566 4466667777766554

>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=99.21  E-value=3e-10  Score=72.39  Aligned_cols=142  Identities=12%  Similarity=0.107  Sum_probs=103.0

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHH-HHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDA-FCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~~~~~~   80 (176)
                      +.+.|++++|...|++..+.. |.+...+..+...+...|++++|+..++......  |+...+..+... +...+....
T Consensus        16 ~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~   92 (176)
T 2r5s_A           16 LLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQAAESP   92 (176)
T ss_dssp             HHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHHHTSCH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhhcccch
Confidence            457899999999999987764 3378889999999999999999999998876553  344333322212 222233345


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSML  147 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~  147 (176)
                      |...+++..+..+. +...+..+..++...|++++|...|+++......+...             |+.++|...|++..
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            78889998887654 78899999999999999999999999988765443221             55555555555443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.21  E-value=1.9e-09  Score=71.41  Aligned_cols=147  Identities=13%  Similarity=0.079  Sum_probs=106.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCCC-c-cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcCh--hhHHHHHHHHHh---
Q 030489            2 LIKECHLDAALKLFGQLTDRGLE-P-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS--ITFTILIDAFCK---   74 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~---   74 (176)
                      +.+.|++++|...|+.+.+..+. | ....+..+..++.+.|++++|+..|++..+.......  ..+..+..++.+   
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            46789999999999999876432 1 2467888999999999999999999998876322111  134444444443   


Q ss_pred             ---------------cCCHHHHHHHHHHHHhcCCCCcHHHH-----------------HHHHHHHHhcCCHHHHHHHHHH
Q 030489           75 ---------------EGRMDDATMMFSKMLEKGPKANVVTY-----------------SCLIDGYFKSQNMKSAFDVYEE  122 (176)
Q Consensus        75 ---------------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~g~~~~a~~~~~~  122 (176)
                                     .|+.++|...|+++++..+. +..++                 ..+...|.+.|++++|+..|++
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                           57899999999999987543 33333                 2455678889999999999999


Q ss_pred             HHHCCCCCCCC--------------CChHHHHHHHHHHHHC
Q 030489          123 MCENNISPNIA--------------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus       123 m~~~~~~~~~~--------------~~~~~a~~~~~~m~~~  149 (176)
                      +.+........              |+.++|.+.++.+...
T Consensus       173 ~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          173 MLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             HHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             HHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence            87653222111              8999999999888765

>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=99.20  E-value=5.2e-10  Score=75.70  Aligned_cols=124  Identities=15%  Similarity=0.154  Sum_probs=101.2

Q ss_pred             chhhCChhHHHHHHHHHhhC------C-CCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC------C-CCcChhhHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR------G-LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV------Q-LKPNSITFTI   67 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~-~~~~~~~~~~   67 (176)
                      |...|++++|++.+++..+.      + .+....++..+...|...|++++|++.+.+....      . .+....++..
T Consensus        53 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  132 (283)
T 3edt_B           53 YRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNN  132 (283)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHH
Confidence            46789999999999988754      2 2335678999999999999999999999987754      1 1234667888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc------C-CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           68 LIDAFCKEGRMDDATMMFSKMLEK------G-PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        68 ll~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +...+...|++++|...+++..+.      + .+....++..+...|...|++++|...+++...
T Consensus       133 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          133 LALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            889999999999999999998865      1 122456788999999999999999999998865

>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=99.20  E-value=8.2e-10  Score=82.69  Aligned_cols=142  Identities=6%  Similarity=-0.017  Sum_probs=90.6

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMM   84 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   84 (176)
                      .|++++|.+.|++..+.. +.+...|..+...+.+.|++++|++.|++..+... .+...+..+..+|...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            467788888888777653 33577788888888888888888888888776532 2566777777888888888888888


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC--------------CChHHHHHHHHHHHHC
Q 030489           85 FSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA--------------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--------------~~~~~a~~~~~~m~~~  149 (176)
                      |++..+.... +...+..+..+|.+.|++++|.+.+++..+........              |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            8888777543 67778888888888888888888888876643211111              6777888888777754

>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=99.19  E-value=2.1e-09  Score=67.25  Aligned_cols=120  Identities=13%  Similarity=0.093  Sum_probs=89.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|...|++..+.. +.+..++..+...+...|++++|+..+++..+.. +.+...+..+..++...|++++|
T Consensus        23 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A  100 (166)
T 1a17_A           23 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAA  100 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhccHHHH
Confidence            356788888888888887764 3367888888888888888888888888877653 33567777788888888888888


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHH--HHHHHhcCCHHHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCL--IDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l--~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      ...|++..+.... +...+..+  ...+.+.|++++|...+....
T Consensus       101 ~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A          101 LRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            8888888876543 55555333  334677788888888887653

>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=99.18  E-value=1.1e-10  Score=84.08  Aligned_cols=104  Identities=13%  Similarity=0.094  Sum_probs=46.5

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +..+|+.+...|...|.+++|..+|..+         ..|..+..++.+.|++++|.+.++++      .++.+|..++.
T Consensus       121 n~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~  185 (449)
T 1b89_A          121 NNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCF  185 (449)
T ss_dssp             ----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHH
Confidence            3345555555555555555555555433         24555555555555555555555555      15556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCCC----------CChHHHHHHHHHHH
Q 030489          106 GYFKSQNMKSAFDVYEEMCENNISPNIA----------GRPTEAMQLYDSML  147 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~----------~~~~~a~~~~~~m~  147 (176)
                      +|...|+|+.|......+.   ..|+..          |.+++|+.+++...
T Consensus       186 aCv~~~ef~lA~~~~l~L~---~~ad~l~~lv~~Yek~G~~eEai~lLe~aL  234 (449)
T 1b89_A          186 ACVDGKEFRLAQMCGLHIV---VHADELEELINYYQDRGYFEELITMLEAAL  234 (449)
T ss_dssp             HHHHTTCHHHHHHTTTTTT---TCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHcCcHHHHHHHHHHHH---hCHhhHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            6666666666633332211   111111          66777766666665

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.16  E-value=3.1e-10  Score=78.01  Aligned_cols=151  Identities=20%  Similarity=0.193  Sum_probs=119.0

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-------CCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc-----
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-------QLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK-----   91 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----   91 (176)
                      +.+..++..+...+...|++++|+.+++++.+.       ..+....++..+...|...|++++|...+++..+.     
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            345788999999999999999999999988763       23345667888889999999999999999988764     


Q ss_pred             -C-CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------CCCCCCC-------------CChHHHHHHHHHHHHC-
Q 030489           92 -G-PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN------NISPNIA-------------GRPTEAMQLYDSMLRN-  149 (176)
Q Consensus        92 -~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~------~~~~~~~-------------~~~~~a~~~~~~m~~~-  149 (176)
                       + .+....++..+...|...|++++|...+++..+.      +..+...             |++++|++++++..+. 
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  183 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY  183 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             2 2335677889999999999999999999988654      2222222             9999999999998753 


Q ss_pred             -----CCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          150 -----GIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       150 -----g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                           +..|. ..++..+...+...|++++|
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  214 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQA  214 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHH
Confidence                 22333 44778888999999998876

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.16  E-value=1.5e-09  Score=74.77  Aligned_cols=147  Identities=14%  Similarity=-0.006  Sum_probs=113.3

Q ss_pred             chhhCChhHHHHHHHHHhhC----CCCcc-HHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCCc-ChhhHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR----GLEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKP-NSITFTILIDA   71 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~   71 (176)
                      |...|++++|.+.|.+..+.    |-++. ..+|+.+..+|.+.|++++|+..|++..+.    |-.+ -..+++.+...
T Consensus        47 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~  126 (292)
T 1qqe_A           47 YRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEI  126 (292)
T ss_dssp             HHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            45678999999999877653    32222 578999999999999999999999887653    1111 13578888899


Q ss_pred             HHhc-CCHHHHHHHHHHHHhcCCCC-c----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC-------C-----
Q 030489           72 FCKE-GRMDDATMMFSKMLEKGPKA-N----VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI-------A-----  133 (176)
Q Consensus        72 ~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~-------~-----  133 (176)
                      |... |++++|...|++..+..... +    ..+++.+...|.+.|++++|+..|++..........       .     
T Consensus       127 ~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  206 (292)
T 1qqe_A          127 LENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKG  206 (292)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHH
T ss_pred             HHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHH
Confidence            9996 99999999999887642211 1    457889999999999999999999999875543322       0     


Q ss_pred             ------CChHHHHHHHHHHHH
Q 030489          134 ------GRPTEAMQLYDSMLR  148 (176)
Q Consensus       134 ------~~~~~a~~~~~~m~~  148 (176)
                            |++++|...|++..+
T Consensus       207 ~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          207 LCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHcCCHHHHHHHHHHHHh
Confidence                  899999999999875

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.15  E-value=2e-09  Score=64.93  Aligned_cols=102  Identities=12%  Similarity=0.083  Sum_probs=86.6

Q ss_pred             CCcc-HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHH
Q 030489           23 LEPD-IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYS  101 (176)
Q Consensus        23 ~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  101 (176)
                      +.|+ ...+......|.+.|++++|++.|++..+.. +.+..+|..+..+|.+.|++++|+..|++.++.+.. +...|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHH
Confidence            3443 4678888899999999999999999988764 337788888899999999999999999999988654 788899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489          102 CLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       102 ~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+..+|...|++++|.+.|++..+.
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999988764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.14  E-value=5.1e-09  Score=77.74  Aligned_cols=165  Identities=13%  Similarity=0.251  Sum_probs=124.4

Q ss_pred             hCChh-------HHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC-h-hhHHHHHHHHHhc
Q 030489            5 ECHLD-------AALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN-S-ITFTILIDAFCKE   75 (176)
Q Consensus         5 ~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~-~~~~~ll~~~~~~   75 (176)
                      .|+++       +|.++|++..+.-.+.+...|..++..+.+.|++++|..+|++..+.  .|+ . ..|...+..+.+.
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~  369 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRA  369 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHh
Confidence            58876       89999999986323447899999999999999999999999999885  444 2 4788888888899


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcHHHHHHHHH-HHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHH
Q 030489           76 GRMDDATMMFSKMLEKGPKANVVTYSCLID-GYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQ  141 (176)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~  141 (176)
                      |++++|.++|++..+.... +...|..... .+...|++++|..+|++..+..  |+..             |+.++|..
T Consensus       370 ~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~  446 (530)
T 2ooe_A          370 EGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRV  446 (530)
T ss_dssp             HHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHH
T ss_pred             cCHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHH
Confidence            9999999999999876332 3333333222 2346899999999999887643  3332             99999999


Q ss_pred             HHHHHHHCC-CCCc--HHHHHHHHHHhhcccCcccc
Q 030489          142 LYDSMLRNG-IMPD--GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       142 ~~~~m~~~g-~~p~--~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +|++....+ ..|+  ...|...+......|+.+.+
T Consensus       447 ~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~  482 (530)
T 2ooe_A          447 LFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASI  482 (530)
T ss_dssp             HHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHH
T ss_pred             HHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            999999763 2333  33677777777777876543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.14  E-value=1.4e-09  Score=74.69  Aligned_cols=147  Identities=13%  Similarity=0.093  Sum_probs=79.5

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      +.+...+..+...+...|++++|+..|++...... -+...+..+...+.+.|++++|...+++....... ........
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~-~~~~~~~~  191 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQD-TRYQGLVA  191 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCS-HHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcc-hHHHHHHH
Confidence            33445555666666666666666666666655432 24455556666666666666666666666554321 11222222


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCCC-CcHHHHHHHHHHhhccc
Q 030489          104 IDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGIM-PDGLLLSTLADYNLQSS  169 (176)
Q Consensus       104 ~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~~-p~~~~~~~l~~~~~~~g  169 (176)
                      ...+.+.++.+.|...+++....  .|+..             |++++|+..|.++.+.... .+...+..+...+...|
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~--~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAE--NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHhhcccCccHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            23345555566666666655543  23222             6666666666666644211 11445666666666666


Q ss_pred             Ccccc
Q 030489          170 GSQEH  174 (176)
Q Consensus       170 ~~~~A  174 (176)
                      +.++|
T Consensus       270 ~~~~a  274 (287)
T 3qou_A          270 TGDAL  274 (287)
T ss_dssp             TTCHH
T ss_pred             CCCcH
Confidence            66554

>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=99.14  E-value=1e-09  Score=68.13  Aligned_cols=111  Identities=12%  Similarity=-0.015  Sum_probs=93.4

Q ss_pred             HHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 030489           13 KLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKG   92 (176)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   92 (176)
                      ..|+++.+.. +.+...+..+...+.+.|++++|+..|+...... +.+...|..+..+|...|++++|...|++.....
T Consensus         8 ~~~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~   85 (148)
T 2vgx_A            8 GTIAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD   85 (148)
T ss_dssp             CSHHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            3455555542 3366778889999999999999999999988764 3377888889999999999999999999999886


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           93 PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        93 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +. +..+|..+..+|...|++++|...|++....
T Consensus        86 p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           86 IX-EPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             TT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CC-CchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            54 7888999999999999999999999988764

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.13  E-value=5.3e-09  Score=63.05  Aligned_cols=101  Identities=11%  Similarity=0.129  Sum_probs=82.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.+.|++++|++.|++..+.. +.+..+|..+..++.+.|++++|+..|++..+... .+...|..+..++...|++++|
T Consensus        23 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A  100 (126)
T 4gco_A           23 YFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDS-KFIKGYIRKAACLVAMREWSKA  100 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh-hhhHHHHHHHHHHHHCCCHHHH
Confidence            567899999999999988764 44788899999999999999999999998887643 3677888888999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      .+.|++..+..+. +...+..+-.
T Consensus       101 ~~~~~~al~l~P~-~~~a~~~l~~  123 (126)
T 4gco_A          101 QRAYEDALQVDPS-NEEAREGVRN  123 (126)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHCcC-CHHHHHHHHH
Confidence            9999999887654 6666555543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.13  E-value=5.8e-09  Score=61.80  Aligned_cols=99  Identities=23%  Similarity=0.376  Sum_probs=83.0

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +...|..+...+...|++++|++.++++.... +.+..++..+...+.+.|++++|...++++.+... .+..++..+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~   85 (125)
T 1na0_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHH
Confidence            36778888888999999999999999887754 33677788888899999999999999999887754 37788888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 030489          106 GYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .|...|++++|...++++...
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHh
Confidence            999999999999999988764

>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=99.11  E-value=4.5e-08  Score=63.77  Aligned_cols=133  Identities=11%  Similarity=0.025  Sum_probs=106.7

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (176)
                      ..+..+...+...|++++|+..|++..    .|+...+..+..++.+.|++++|.+.|++..+.... +...|..+..+|
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            345677788889999999999998763    668889999999999999999999999999988644 788999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCC--------------C--C-----------CChHHHHHHHHHHHHCCCCCcHHHHHH
Q 030489          108 FKSQNMKSAFDVYEEMCENNISPN--------------I--A-----------GRPTEAMQLYDSMLRNGIMPDGLLLST  160 (176)
Q Consensus       108 ~~~g~~~~a~~~~~~m~~~~~~~~--------------~--~-----------~~~~~a~~~~~~m~~~g~~p~~~~~~~  160 (176)
                      ...|++++|...|++.........              .  .           |++++|.+.|++..+.........+..
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            999999999999999987543322              0  0           999999999999997643333344444


Q ss_pred             HHHHh
Q 030489          161 LADYN  165 (176)
Q Consensus       161 l~~~~  165 (176)
                      .+..+
T Consensus       162 a~~~~  166 (213)
T 1hh8_A          162 AMECV  166 (213)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44444

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.11  E-value=1.8e-10  Score=82.50  Aligned_cols=172  Identities=17%  Similarity=0.168  Sum_probs=128.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccH----HHHHHHHHHHHhCCChhHHHHHHHHHHhC----CC-CcChhhHHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDI----ITYNTIICGYCSLNRLDEAVQLFEKLTCV----QL-KPNSITFTILIDAF   72 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~~~~~ll~~~   72 (176)
                      +.+.|++++|...|++..+.+.. +.    .+|..+...|...|++++|+..+++..+.    +. .....++..+...|
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            45789999999999999887433 33    57889999999999999999999887643    11 22456677888999


Q ss_pred             HhcCCHHHHHHHHHHHHhc----C-CCCcHHHHHHHHHHHHhcCC-----------------HHHHHHHHHHHHHC----
Q 030489           73 CKEGRMDDATMMFSKMLEK----G-PKANVVTYSCLIDGYFKSQN-----------------MKSAFDVYEEMCEN----  126 (176)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~g~-----------------~~~a~~~~~~m~~~----  126 (176)
                      ...|++++|...+++..+.    + .+....++..+...|...|+                 +++|...+++....    
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            9999999999999987654    1 12245578889999999999                 99999999876432    


Q ss_pred             CCCCCCC-------------CChHHHHHHHHHHHHCCC-CCc----HHHHHHHHHHhhcccCcccc
Q 030489          127 NISPNIA-------------GRPTEAMQLYDSMLRNGI-MPD----GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       127 ~~~~~~~-------------~~~~~a~~~~~~m~~~g~-~p~----~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +..+...             |++++|.+.+++..+... .++    ...+..+...+...|++++|
T Consensus       217 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  282 (411)
T 4a1s_A          217 GDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDA  282 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHH
Confidence            1111111             999999999988874210 111    23778888899999988776

>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=99.10  E-value=9.6e-09  Score=76.91  Aligned_cols=124  Identities=9%  Similarity=-0.031  Sum_probs=109.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.+.|++++|.+.|++..+.. +.+...|..+..+|...|++++|++.+++..+.. +.+...+..+..++.+.|++++|
T Consensus        33 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A  110 (568)
T 2vsy_A           33 ELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAA-PEHPGIALWLGHALEDAGQAEAA  110 (568)
T ss_dssp             HHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            457899999999999999875 3478899999999999999999999999988764 33678889999999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHCCC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKS---QNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~m~~~~~  128 (176)
                      .+.|++..+.... +...+..+..++...   |++++|.+.+++..+.+.
T Consensus       111 ~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~p  159 (568)
T 2vsy_A          111 AAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQGV  159 (568)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcCC
Confidence            9999999988654 788999999999999   999999999999876543

>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=99.10  E-value=5.7e-09  Score=73.33  Aligned_cols=121  Identities=15%  Similarity=0.093  Sum_probs=103.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCcc--------------HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPD--------------IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI   67 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   67 (176)
                      |.+.|++++|...|++..+......              ..+|..+..+|.+.|++++|+..+++..+.. +.+...+..
T Consensus       157 ~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~  235 (336)
T 1p5q_A          157 YFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSR  235 (336)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHH
Confidence            5678999999999999988743322              5899999999999999999999999998864 337788999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 030489           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSA-FDVYEEMC  124 (176)
Q Consensus        68 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a-~~~~~~m~  124 (176)
                      +..+|...|++++|...|++..+..+. +..++..+..++.+.|+++++ ...++.|.
T Consensus       236 lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          236 RGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999988654 788999999999999999988 55666663

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.09  E-value=6.4e-09  Score=62.12  Aligned_cols=99  Identities=15%  Similarity=0.131  Sum_probs=61.7

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +...+..+...+...|++++|+..+++..... +.+...+..+..++...|++++|.+.+++..+.... +...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPA-YSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCcc-CHHHHHHHHH
Confidence            44556666666666666777766666665542 224555666666666666777776666666655432 4566666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 030489          106 GYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .|...|++++|...+++....
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHhc
Confidence            666667777776666666543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.09  E-value=3e-09  Score=68.77  Aligned_cols=145  Identities=14%  Similarity=-0.002  Sum_probs=105.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCC-cChhhHHHHHHHHHhcC
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLK-PNSITFTILIDAFCKEG   76 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~ll~~~~~~~   76 (176)
                      ....|++++|.++++.+... ......++..+...+...|++++|+..+++....    +.. ....++..+...+...|
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            45789999999966655442 3346788999999999999999999999887652    222 23456777888999999


Q ss_pred             CHHHHHHHHHHHHhc----CCC--CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------------
Q 030489           77 RMDDATMMFSKMLEK----GPK--ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------------  133 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~----~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------------  133 (176)
                      ++++|...+++..+.    +..  .....+..+...+...|++++|...+++...........                 
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            999999999887653    212  234568888899999999999999999875421111111                 


Q ss_pred             CChHHHHHHHHHHH
Q 030489          134 GRPTEAMQLYDSML  147 (176)
Q Consensus       134 ~~~~~a~~~~~~m~  147 (176)
                      |++++|.+.+++..
T Consensus       161 g~~~~A~~~~~~al  174 (203)
T 3gw4_A          161 KNLLEAQQHWLRAR  174 (203)
T ss_dssp             TCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHH
Confidence            89999999888776

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.09  E-value=5.3e-09  Score=76.19  Aligned_cols=168  Identities=13%  Similarity=0.016  Sum_probs=111.7

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhc---------
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE---------   75 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~---------   75 (176)
                      .+++++|.+++++..... +.+..++..+...|...|++++|+..+++..+... -+..++..+..+|...         
T Consensus       226 ~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~y~~~~~~~~~~~~  303 (472)
T 4g1t_A          226 GEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIP-NNAYLHCQIGCCYRAKVFQVMNLRE  303 (472)
T ss_dssp             ----CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             hhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCC-ChHHHHHHHHHHHHHHHHHhhhHHH
Confidence            467788888888887664 44778888888899999999999999988876532 2445555555444321         


Q ss_pred             ----------CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------
Q 030489           76 ----------GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------  133 (176)
Q Consensus        76 ----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------  133 (176)
                                +..+.|...++...+.... +..++..+...|...|++++|...|++..+....+...            
T Consensus       304 ~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~  382 (472)
T 4g1t_A          304 NGMYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQL  382 (472)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHH
Confidence                      2345667777776666443 66677778888888888888888888877654433221            


Q ss_pred             ---CChHHHHHHHHHHHHCCC-----------------------CCcHHHHHHHHHHhhcccCccccC
Q 030489          134 ---GRPTEAMQLYDSMLRNGI-----------------------MPDGLLLSTLADYNLQSSGSQEHC  175 (176)
Q Consensus       134 ---~~~~~a~~~~~~m~~~g~-----------------------~p~~~~~~~l~~~~~~~g~~~~A~  175 (176)
                         ++.++|+..|.+..+...                       +.+..++..+-..+...|+.++|.
T Consensus       383 ~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~  450 (472)
T 4g1t_A          383 YQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQAD  450 (472)
T ss_dssp             HTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC---
T ss_pred             HHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence               677778777776654311                       223567888888888889888873

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.09  E-value=8.3e-09  Score=76.61  Aligned_cols=160  Identities=11%  Similarity=0.102  Sum_probs=129.0

Q ss_pred             hHHHHHHHHHhhCCCCccHHHHHHHHHHHHh-------CCChh-------HHHHHHHHHHhCCCCcChhhHHHHHHHHHh
Q 030489            9 DAALKLFGQLTDRGLEPDIITYNTIICGYCS-------LNRLD-------EAVQLFEKLTCVQLKPNSITFTILIDAFCK   74 (176)
Q Consensus         9 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-------~~~~~-------~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   74 (176)
                      ++|..+|++..... +.+...|......+.+       .|+++       +|..+|++..+.-.+-+...|..+...+.+
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            36777888887763 4478899988888875       79987       999999998863223468889999999999


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC--------------CChHHH
Q 030489           75 EGRMDDATMMFSKMLEKGPKAN-VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA--------------GRPTEA  139 (176)
Q Consensus        75 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--------------~~~~~a  139 (176)
                      .|++++|..+|++..+.... + ...|..++..+.+.|++++|.++|++..+..  |...              |+.++|
T Consensus       334 ~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~--~~~~~~~~~~a~~~~~~~~~~~~A  410 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--RTRHHVYVTAALMEYYCSKDKSVA  410 (530)
T ss_dssp             TTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT--TCCTHHHHHHHHHHHHHTCCHHHH
T ss_pred             cCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc--CCchHHHHHHHHHHHHHcCChhHH
Confidence            99999999999999986432 3 3589999999999999999999999987642  3221              889999


Q ss_pred             HHHHHHHHHCCCCC-cHHHHHHHHHHhhcccCcccc
Q 030489          140 MQLYDSMLRNGIMP-DGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       140 ~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ..+|++..+.  .| +...+..++..+.+.|+.+.|
T Consensus       411 ~~~~e~al~~--~p~~~~~~~~~~~~~~~~g~~~~A  444 (530)
T 2ooe_A          411 FKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNT  444 (530)
T ss_dssp             HHHHHHHHHH--HTTCHHHHHHHHHHHTTTTCHHHH
T ss_pred             HHHHHHHHHH--CCCCHHHHHHHHHHHHhCCCHhhH
Confidence            9999999864  34 467888999999999987765

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.08  E-value=3.5e-09  Score=75.33  Aligned_cols=169  Identities=14%  Similarity=0.057  Sum_probs=124.9

Q ss_pred             chhhCChhHHHHHHHHHhhC----CC-Cc-cHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCCc-ChhhHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR----GL-EP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKP-NSITFTILID   70 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~----~~-~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~   70 (176)
                      |...|+++.|...+++..+.    +. .+ ...+++.+...|...|++++|++.|++....    +..+ ...++..+..
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            45678999999999887643    11 11 3567889999999999999999999887652    2111 2356778889


Q ss_pred             HHHhcCCHHHHHHHHHHHHh-----cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------
Q 030489           71 AFCKEGRMDDATMMFSKMLE-----KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------  133 (176)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------  133 (176)
                      +|...|++++|.+.|++..+     ... ....++..+...|.+.|++++|...+++...........            
T Consensus       231 ~y~~~~~~~~A~~~~~~al~~~~~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~l  309 (378)
T 3q15_A          231 SYDRSGDDQMAVEHFQKAAKVSREKVPD-LLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAV  309 (378)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHhhCCh-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999999999999998876     433 347788999999999999999999999987643322221            


Q ss_pred             ----CC---hHHHHHHHHHHHHCCCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          134 ----GR---PTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ----~~---~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                          ++   .++|+..+++   .+..|+ ...+..+...|...|+.++|
T Consensus       310 y~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A  355 (378)
T 3q15_A          310 YKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFESSCHFEQA  355 (378)
T ss_dssp             HSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHHHCCCHHHH
Confidence                55   6666666665   333333 34667788889999988776

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.08  E-value=8e-10  Score=78.69  Aligned_cols=170  Identities=10%  Similarity=0.031  Sum_probs=122.6

Q ss_pred             chhhCChhHHHHHHHHHhhC----C--CCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCCc-ChhhHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR----G--LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKP-NSITFTILID   70 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~----~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~   70 (176)
                      |...|++++|.+.+.+..+.    +  .+....+++.+...|...|++++|+..+++....    +-.+ ...++..+..
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            45678888999888877643    1  1113467888999999999999999999887643    1111 1246788889


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc----CC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------
Q 030489           71 AFCKEGRMDDATMMFSKMLEK----GP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------  133 (176)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------  133 (176)
                      +|...|++++|.+.|++..+.    +. +....++..+...|.+.|++++|...+++...........            
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            999999999999999988762    23 4456778999999999999999999999875431111110            


Q ss_pred             ----CC---hHHHHHHHHHHHHCCCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          134 ----GR---PTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ----~~---~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                          |+   .++|+.++++.   +..|+ ...+..+...|...|+.++|
T Consensus       313 ~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A  358 (383)
T 3ulq_A          313 YLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKA  358 (383)
T ss_dssp             HTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence                55   66666666665   33333 34667788899999988776

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.07  E-value=9e-09  Score=61.82  Aligned_cols=101  Identities=9%  Similarity=0.048  Sum_probs=82.6

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      +.+...|..+...+.+.|++++|+..|++..... +.+...+..+..++...|++++|.+.+++..+.... +..++..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHH
Confidence            4467888888888889999999999998887653 236777888888888899999999999888877543 77888888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC
Q 030489          104 IDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       104 ~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      ..+|.+.|++++|...|++....
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHh
Confidence            88899999999999999887654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.07  E-value=1.5e-08  Score=60.00  Aligned_cols=106  Identities=21%  Similarity=0.293  Sum_probs=83.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|+++.+.. +.+..++..+...+.+.|++++|+.+++++.... +.+..++..+...+...|++++|
T Consensus        19 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A   96 (125)
T 1na0_A           19 YYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEA   96 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHH
Confidence            456789999999999888764 3467888888899999999999999998887754 33677788888889999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKS  110 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  110 (176)
                      ...|+++.+..+. +...+..+...+...
T Consensus        97 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~  124 (125)
T 1na0_A           97 IEYYQKALELDPN-NAEAKQNLGNAKQKQ  124 (125)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-cHHHHHHHHHHHHhc
Confidence            9999988877543 566666666655543

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.06  E-value=5.5e-09  Score=64.87  Aligned_cols=108  Identities=13%  Similarity=0.049  Sum_probs=90.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.+.|++++|.+.|++..+.. +-+..+|..+..+|.+.|++++|+..|++..+.... +..++..+...|.+.|+.++|
T Consensus        41 y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a  118 (150)
T 4ga2_A           41 YYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGR  118 (150)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHH
Confidence            567899999999999999875 348899999999999999999999999999886432 678899999999999998776


Q ss_pred             HHH-HHHHHhcCCCCcHHHHHHHHHHHHhcCC
Q 030489           82 TMM-FSKMLEKGPKANVVTYSCLIDGYFKSQN  112 (176)
Q Consensus        82 ~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~  112 (176)
                      .+. +++..+..+. +..+|......+.+.|+
T Consensus       119 a~~~~~~al~l~P~-~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A          119 AKYWVERAAKLFPG-SPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHSTT-CHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCc
Confidence            554 6888887654 77888887777777664

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.05  E-value=1.8e-08  Score=68.04  Aligned_cols=142  Identities=10%  Similarity=0.078  Sum_probs=112.2

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CcHH
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN---SITFTILIDAFCKEGRMDDATMMFSKMLEKGPK--ANVV   98 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~   98 (176)
                      +.+...+..+...+.+.|++++|+..|++..+.... +   ...+..+..+|.+.|++++|...|++..+..+.  ....
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            446788888899999999999999999999876422 3   567888889999999999999999999987432  2356


Q ss_pred             HHHHHHHHHHh--------cCCHHHHHHHHHHHHHCCCCCCC-------------------C---------CChHHHHHH
Q 030489           99 TYSCLIDGYFK--------SQNMKSAFDVYEEMCENNISPNI-------------------A---------GRPTEAMQL  142 (176)
Q Consensus        99 ~~~~l~~~~~~--------~g~~~~a~~~~~~m~~~~~~~~~-------------------~---------~~~~~a~~~  142 (176)
                      ++..+..++..        .|++++|...|++..........                   .         |++++|+..
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  170 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVT  170 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            67788888888        99999999999998875432211                   1         999999999


Q ss_pred             HHHHHHCCCCCc----HHHHHHHHHHhhcc
Q 030489          143 YDSMLRNGIMPD----GLLLSTLADYNLQS  168 (176)
Q Consensus       143 ~~~m~~~g~~p~----~~~~~~l~~~~~~~  168 (176)
                      |+++.+.  .|+    ...+..+..++...
T Consensus       171 ~~~~l~~--~p~~~~~~~a~~~l~~~~~~~  198 (261)
T 3qky_A          171 YEAVFDA--YPDTPWADDALVGAMRAYIAY  198 (261)
T ss_dssp             HHHHHHH--CTTSTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH--CCCCchHHHHHHHHHHHHHHh
Confidence            9999865  343    34666777777766

>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=99.05  E-value=1.7e-08  Score=69.36  Aligned_cols=146  Identities=11%  Similarity=0.085  Sum_probs=104.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCC-CccH----HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCC-cC----hhhHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGL-EPDI----ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK-PN----SITFTILIDA   71 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~ll~~   71 (176)
                      +.+.|++++|.++++...+... .|+.    ..+..+...+...+++++|+..|++....... ++    ..+++.+...
T Consensus        85 ~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~  164 (293)
T 3u3w_A           85 LCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANI  164 (293)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHH
Confidence            3567999999999999887532 2332    23345777777888999999999998874322 22    2368888999


Q ss_pred             HHhcCCHHHHHHHHHHHHh----c-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCCCC--------
Q 030489           72 FCKEGRMDDATMMFSKMLE----K-GPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN----NISPNIA--------  133 (176)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~----~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~~~~~~--------  133 (176)
                      |...|++++|...|++..+    . +..+ ...+|..+...|.+.|++++|...+++..+.    +..+...        
T Consensus       165 y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~  244 (293)
T 3u3w_A          165 YAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGE  244 (293)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHH
Confidence            9999999999999998873    1 1122 2347888999999999999999999987542    2112111        


Q ss_pred             -----C-ChHHHHHHHHHHH
Q 030489          134 -----G-RPTEAMQLYDSML  147 (176)
Q Consensus       134 -----~-~~~~a~~~~~~m~  147 (176)
                           | .+++|.+.+++..
T Consensus       245 ~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          245 CLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHhCCcHHHHHHHHHHHH
Confidence                 6 4588888777765

>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=99.05  E-value=1.8e-08  Score=60.40  Aligned_cols=98  Identities=14%  Similarity=0.108  Sum_probs=81.5

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +...|..+...+.+.|++++|+..|++..+.. +.+...|..+..++.+.|++++|...+++..+..+. +..+|..+..
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~   80 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHH
Confidence            45667788888889999999999998887764 336778888888999999999999999998887654 7888888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 030489          106 GYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +|...|++++|...|++...
T Consensus        81 ~~~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           81 AQIAVKEYASALETLDAART  100 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHH
Confidence            99999999999999887765

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.04  E-value=1.9e-08  Score=66.56  Aligned_cols=147  Identities=14%  Similarity=0.096  Sum_probs=111.1

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCC-c-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcH--HHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK-P-NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANV--VTYS  101 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  101 (176)
                      +...+..+...+.+.|++++|+..|+++...... | ....+..+..++.+.|++++|...|+++.+..+....  ..+.
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            4556677778899999999999999999875322 1 2356778889999999999999999999987544221  2454


Q ss_pred             HHHHHHHh------------------cCCHHHHHHHHHHHHHCCCCCCCC----------------------------CC
Q 030489          102 CLIDGYFK------------------SQNMKSAFDVYEEMCENNISPNIA----------------------------GR  135 (176)
Q Consensus       102 ~l~~~~~~------------------~g~~~~a~~~~~~m~~~~~~~~~~----------------------------~~  135 (176)
                      .+..++.+                  .|++++|...|+++.+........                            |+
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~  162 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGA  162 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCc
Confidence            55555543                  578999999999998754332211                            89


Q ss_pred             hHHHHHHHHHHHHCCCCCcH----HHHHHHHHHhhcccCcccc
Q 030489          136 PTEAMQLYDSMLRNGIMPDG----LLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       136 ~~~a~~~~~~m~~~g~~p~~----~~~~~l~~~~~~~g~~~~A  174 (176)
                      +++|+..|+++.+.  .|+.    ..+..+..++.+.|+.++|
T Consensus       163 ~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A  203 (225)
T 2yhc_A          163 WVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQA  203 (225)
T ss_dssp             HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHH
Confidence            99999999999865  3442    4678888999999998876

>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=99.03  E-value=1.3e-08  Score=74.87  Aligned_cols=117  Identities=12%  Similarity=0.086  Sum_probs=96.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|++..+.. +.+..+|..+..+|.+.|++++|++.+++..+... .+..++..+..+|.+.|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHH
Confidence            567899999999999998874 44789999999999999999999999999988743 3678889999999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHH--HHhcCCHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDG--YFKSQNMKSAFDVYE  121 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~  121 (176)
                      .+.|++..+.... +...+..+..+  +.+.|++++|++.++
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            9999999987543 55566666666  888999999999998

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.03  E-value=2.8e-08  Score=59.58  Aligned_cols=108  Identities=14%  Similarity=0.090  Sum_probs=87.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|++..+.. +.+..++..+...+...|++++|+..+++..+.. +.+...+..+..++.+.|++++|
T Consensus        26 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A  103 (133)
T 2lni_A           26 CFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAALEAMKDYTKA  103 (133)
T ss_dssp             HHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHHhhHHHH
Confidence            457899999999999988764 3478889999999999999999999999888764 23677888888999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQN  112 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  112 (176)
                      .+.|++..+.... +...+..+..++.+.|+
T Consensus       104 ~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A          104 MDVYQKALDLDSS-CKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHHHHHHCGG-GTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhCCC-chHHHHHHHHHHHHhcC
Confidence            9999998877543 56677777777766553

>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=99.02  E-value=2e-08  Score=62.70  Aligned_cols=120  Identities=13%  Similarity=0.079  Sum_probs=97.2

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      ....|..+...+...|++++|+..|++..... +.+..++..+..++...|++++|...+++..+.... +..+|..+..
T Consensus        12 ~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~   89 (166)
T 1a17_A           12 RAEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHH
Confidence            35667888889999999999999999988764 336788888999999999999999999999988643 7889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHH
Q 030489          106 GYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSML  147 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~  147 (176)
                      ++...|++++|...+++...........             |++++|++.+.+..
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            9999999999999999987653221111             66666666665543

>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=99.02  E-value=3.4e-08  Score=59.80  Aligned_cols=101  Identities=11%  Similarity=0.013  Sum_probs=89.1

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      +.+...|..+...+...|++++|+..|........ .+...+..+..++...|++++|...+++..+.... +...|..+
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l   83 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFL   83 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc-CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHH
Confidence            44788999999999999999999999999887643 36788889999999999999999999999988654 78899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC
Q 030489          104 IDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       104 ~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      ..+|...|++++|...|++....
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH
Confidence            99999999999999999987653

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=99.02  E-value=3e-08  Score=62.20  Aligned_cols=102  Identities=18%  Similarity=0.176  Sum_probs=87.1

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      +.+...|..+...+.+.|++++|+..|++..+... -+...|..+..+|.+.|++++|...|++..+.... +...|..+
T Consensus         8 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l   85 (164)
T 3sz7_A            8 TPESDKLKSEGNAAMARKEYSKAIDLYTQALSIAP-ANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRL   85 (164)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            34667888899999999999999999999887642 36778888889999999999999999999988654 78889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCC
Q 030489          104 IDGYFKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus       104 ~~~~~~~g~~~~a~~~~~~m~~~~  127 (176)
                      ..+|...|++++|...|++.....
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC
Confidence            999999999999999999887643

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.02  E-value=1.4e-08  Score=62.37  Aligned_cols=99  Identities=10%  Similarity=-0.020  Sum_probs=86.5

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +...+..+...+.+.|++++|+..|+....... .+...|..+..++.+.|++++|...|+.....++. +...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHH
Confidence            556777888889999999999999999887643 37788888999999999999999999999988654 7788899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 030489          106 GYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +|...|++++|...|+.....
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999988654

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.01  E-value=4.3e-08  Score=64.31  Aligned_cols=143  Identities=13%  Similarity=0.036  Sum_probs=95.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCC----ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh---
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN----RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK---   74 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~---   74 (176)
                      |...+++++|.+.|++..+.|   +...+..|-..|.. +    ++++|+++|++..+.|   +...+..|-..|..   
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            345677888888888777765   55666677777766 5    7788888887776654   45566666666665   


Q ss_pred             -cCCHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCCC-----------C---
Q 030489           75 -EGRMDDATMMFSKMLEKGPK-ANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNISPNIA-----------G---  134 (176)
Q Consensus        75 -~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~-----------~---  134 (176)
                       .+++++|.++|++..+.+.. .+...+..|-..|..    .+++++|...|++..+.+..+...           |   
T Consensus       101 ~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~a~~~Lg~~y~~g~gg~~  180 (212)
T 3rjv_A          101 GATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLSRTGYAEYWAGMMFQQGEKGFI  180 (212)
T ss_dssp             SSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTSCTTHHHHHHHHHHHHCBTTTB
T ss_pred             CccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCC
Confidence             67788888888877776532 126677777777777    677888888888776651111111           2   


Q ss_pred             --ChHHHHHHHHHHHHCCC
Q 030489          135 --RPTEAMQLYDSMLRNGI  151 (176)
Q Consensus       135 --~~~~a~~~~~~m~~~g~  151 (176)
                        +.++|+.+|++..+.|.
T Consensus       181 ~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          181 EPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             CCCHHHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHcCC
Confidence              66777777777766553

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.01  E-value=6.6e-09  Score=71.38  Aligned_cols=123  Identities=10%  Similarity=0.088  Sum_probs=102.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHH-HHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILI-DAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll-~~~~~~~~~~~   80 (176)
                      +.+.|++++|...|++..+.. +-+...+..+...+.+.|++++|+..+++....  .|+........ ..+...++.+.
T Consensus       127 ~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l~~~~~~~~  203 (287)
T 3qou_A          127 LMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIELLXQAADTP  203 (287)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHHHHHHTSCH
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHHHhhcccCc
Confidence            457899999999999998874 347889999999999999999999999988765  45544333333 34677888889


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  128 (176)
                      |...+++.....+. +...+..+...|...|++++|...++++.....
T Consensus       204 a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p  250 (287)
T 3qou_A          204 EIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDL  250 (287)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             cHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhccc
Confidence            99999999988654 889999999999999999999999999987643

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=99.01  E-value=1.4e-08  Score=59.00  Aligned_cols=102  Identities=13%  Similarity=0.020  Sum_probs=86.0

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--cHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKA--NVVTYSCL  103 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l  103 (176)
                      +...|..+...+...|++++|+..+++..+.. +.+...+..+..++...|++++|.+.|++..+.. +.  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            56677888889999999999999999988764 3367788888899999999999999999998764 33  57889999


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHHCCCC
Q 030489          104 IDGYFKS-QNMKSAFDVYEEMCENNIS  129 (176)
Q Consensus       104 ~~~~~~~-g~~~~a~~~~~~m~~~~~~  129 (176)
                      ..+|.+. |++++|.+.+++.......
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGCCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhcccC
Confidence            9999999 9999999999998775443

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.00  E-value=6.1e-09  Score=71.68  Aligned_cols=125  Identities=10%  Similarity=-0.053  Sum_probs=97.1

Q ss_pred             chhhCChhHHHHHHHHHhhC----CCCc-cHHHHHHHHHHHHhC-CChhHHHHHHHHHHhCCC----CcC-hhhHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR----GLEP-DIITYNTIICGYCSL-NRLDEAVQLFEKLTCVQL----KPN-SITFTILID   70 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~~~----~~~-~~~~~~ll~   70 (176)
                      |.+.|++++|+..|++..+.    |-.+ -..+++.+..+|... |++++|+..|++..+...    .+. ..++..+..
T Consensus        87 ~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~  166 (292)
T 1qqe_A           87 FKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCAD  166 (292)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Confidence            45679999999999888653    2111 146888999999996 999999999998775311    111 356788899


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCcH------HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           71 AFCKEGRMDDATMMFSKMLEKGPKANV------VTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+.+.|++++|...|++..+.......      ..|..+..++...|++++|...|++....
T Consensus       167 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l  228 (292)
T 1qqe_A          167 LKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (292)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            999999999999999999986544322      15778888999999999999999987653

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.00  E-value=6.9e-09  Score=64.61  Aligned_cols=90  Identities=9%  Similarity=0.008  Sum_probs=80.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|++..+.. |.+...|..+..+|...|++++|+..|++..+.... +...|..+..+|.+.|++++|
T Consensus        46 ~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~~~~lg~~~eA  123 (151)
T 3gyz_A           46 FYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQCQLRLKAPLKA  123 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHH
Confidence            567899999999999999875 448999999999999999999999999999887533 678889999999999999999


Q ss_pred             HHHHHHHHhcCC
Q 030489           82 TMMFSKMLEKGP   93 (176)
Q Consensus        82 ~~~~~~~~~~~~   93 (176)
                      ...|++..+...
T Consensus       124 ~~~~~~al~l~~  135 (151)
T 3gyz_A          124 KECFELVIQHSN  135 (151)
T ss_dssp             HHHHHHHHHHCC
T ss_pred             HHHHHHHHHhCC
Confidence            999999998753

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.00  E-value=9.3e-10  Score=76.07  Aligned_cols=172  Identities=17%  Similarity=0.157  Sum_probs=126.0

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCcc----HHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCC-cChhhHHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPD----IITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLK-PNSITFTILIDAF   72 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~ll~~~   72 (176)
                      +.+.|++++|..+|++..+.... +    ...+..+...+...|++++|++.+++....    +.. ....++..+...+
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            45789999999999999876432 3    467889999999999999999999876542    212 2356677888899


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCC-Cc----HHHHHHHHHHHHhcCC--------------------HHHHHHHHHHHHHC-
Q 030489           73 CKEGRMDDATMMFSKMLEKGPK-AN----VVTYSCLIDGYFKSQN--------------------MKSAFDVYEEMCEN-  126 (176)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~--------------------~~~a~~~~~~m~~~-  126 (176)
                      ...|++++|...+++..+.... ++    ..++..+...|...|+                    +++|...+++.... 
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            9999999999999987643111 11    3478888999999999                    99999999876432 


Q ss_pred             ---CCCCCCC-------------CChHHHHHHHHHHHHC----CCC-CcHHHHHHHHHHhhcccCcccc
Q 030489          127 ---NISPNIA-------------GRPTEAMQLYDSMLRN----GIM-PDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       127 ---~~~~~~~-------------~~~~~a~~~~~~m~~~----g~~-p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                         +..+...             |++++|.+.+++..+.    +.. ....++..+...+...|+.++|
T Consensus       174 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  242 (338)
T 3ro2_A          174 TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  242 (338)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHH
Confidence               1111111             9999999999888632    111 1123677888888888887765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.99  E-value=7.1e-08  Score=57.46  Aligned_cols=109  Identities=20%  Similarity=0.265  Sum_probs=89.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +...|++++|.+.|++..+.. +.+...+..+...+...|++++|+..++...... +.+...+..+...+...|++++|
T Consensus        22 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A   99 (131)
T 2vyi_A           22 QMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSLNKHVEA   99 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHhCCHHHH
Confidence            456789999999999988764 3478888899999999999999999999888763 33577788888899999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM  113 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  113 (176)
                      ...|++..+.... +...+..+..++.+.|++
T Consensus       100 ~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A          100 VAYYKKALELDPD-NETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHHHHHHSTT-CHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhcCcc-chHHHHHHHHHHHHHhcC
Confidence            9999998887543 777888888888877764

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.98  E-value=6.1e-08  Score=56.71  Aligned_cols=99  Identities=17%  Similarity=0.138  Sum_probs=81.1

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      ....+..+...+...|++++|+..|+...... +.+...+..+..++...|++++|...+++..+.... +...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHH
Confidence            45677788888889999999999998887653 236777888888888999999999999988877543 6788888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 030489          106 GYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +|...|++++|...+++..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHhhHHHHHHHHHHHHHc
Confidence            999999999999999887654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.98  E-value=5.5e-09  Score=68.35  Aligned_cols=99  Identities=17%  Similarity=0.253  Sum_probs=83.4

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHH----------------HHHHHHhcCCHHHHHHHHHHHHh
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI----------------LIDAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~----------------ll~~~~~~~~~~~a~~~~~~~~~   90 (176)
                      ...+......+...|++++|+..|++..+.... +...+..                +..+|.+.|++++|...|++..+
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   82 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQ   82 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            444555666788999999999999998876321 4556666                88899999999999999999999


Q ss_pred             cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 030489           91 KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus        91 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  127 (176)
                      ..+. +...|..+..+|...|++++|...|++..+.+
T Consensus        83 ~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  118 (208)
T 3urz_A           83 KAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLE  118 (208)
T ss_dssp             HCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            8755 88999999999999999999999999998753

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.98  E-value=8.8e-09  Score=73.32  Aligned_cols=169  Identities=11%  Similarity=0.049  Sum_probs=122.9

Q ss_pred             chhhCChhHHHHHHHHHhhC----CCCc-cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCC--C----CcChhhHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR----GLEP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ--L----KPNSITFTILID   70 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~----~~~~~~~~~ll~   70 (176)
                      +...|++++|.+.|++..+.    +.++ ...++..+...|...|++++|+..+.+.....  .    .....+++.+..
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    2122 45788999999999999999999998876531  1    112356778889


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCC-----CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCCCC--------
Q 030489           71 AFCKEGRMDDATMMFSKMLEKGP-----KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN----NISPNIA--------  133 (176)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~~~~~~--------  133 (176)
                      +|...|++++|.+.|++..+...     .....++..+...|...|++++|...+++..+.    +..|...        
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            99999999999999998875311     112247888999999999999999999988652    2212222        


Q ss_pred             -----CChHHHHHHHHHHHHC----CCCCcHHHHHHHHHHhhcccC
Q 030489          134 -----GRPTEAMQLYDSMLRN----GIMPDGLLLSTLADYNLQSSG  170 (176)
Q Consensus       134 -----~~~~~a~~~~~~m~~~----g~~p~~~~~~~l~~~~~~~g~  170 (176)
                           |++++|...+++..+.    +-......+..+...+...|+
T Consensus       273 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~  318 (383)
T 3ulq_A          273 IHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPD  318 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCC
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCc
Confidence                 9999999999888742    111112235566677776665

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.98  E-value=5.9e-10  Score=79.79  Aligned_cols=173  Identities=13%  Similarity=0.069  Sum_probs=117.0

Q ss_pred             chhhCChhHHHHHHHHHhhC----C-CCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----C-CCcChhhHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR----G-LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV----Q-LKPNSITFTILIDA   71 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~-~~~~~~~~~~ll~~   71 (176)
                      |...|++++|.+.|++..+.    + .+....++..+...|...|++++|+..+++....    + ......++..+...
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            45678889999988877643    1 1224577888888888999999999888876543    1 11234567777788


Q ss_pred             HHhcCC-----------------HHHHHHHHHHHHhc----CC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 030489           72 FCKEGR-----------------MDDATMMFSKMLEK----GP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS  129 (176)
Q Consensus        72 ~~~~~~-----------------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  129 (176)
                      |...|+                 +++|.+.+++..+.    +. .....++..+...|...|++++|...+++.......
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            888888                 88888888776532    11 113346777888888889998888888877543211


Q ss_pred             CCC------C-----------CChHHHHHHHHHHHHCC----CC-CcHHHHHHHHHHhhcccCcccc
Q 030489          130 PNI------A-----------GRPTEAMQLYDSMLRNG----IM-PDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       130 ~~~------~-----------~~~~~a~~~~~~m~~~g----~~-p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ...      .           |++++|.+.+++..+..    .. ....++..+...+...|+.++|
T Consensus       256 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  322 (411)
T 4a1s_A          256 FGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTA  322 (411)
T ss_dssp             HTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            111      0           88888888888776321    10 1145667777888888887765

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.95  E-value=2.7e-08  Score=64.39  Aligned_cols=122  Identities=15%  Similarity=0.085  Sum_probs=92.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCcc---------------HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPD---------------IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFT   66 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~   66 (176)
                      +.+.|++++|.+.|++..+......               ..+|..+..+|.+.|++++|+..++...+.. +.+...+.
T Consensus        48 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  126 (198)
T 2fbn_A           48 FFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALY  126 (198)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHH
Confidence            4578999999999999987532211               2788899999999999999999999988764 33677888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHH-HHHHHHHH
Q 030489           67 ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAF-DVYEEMCE  125 (176)
Q Consensus        67 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~  125 (176)
                      .+..+|...|++++|.+.|++..+.... +..++..+..++...++..++. ..+..|..
T Consensus       127 ~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          127 KLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            8899999999999999999999887644 7788888888888887777766 55555543

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.95  E-value=4.5e-08  Score=58.56  Aligned_cols=89  Identities=13%  Similarity=0.078  Sum_probs=78.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|++.|++..+.. +.+...|..+..++.+.|++++|+..+++..+... .+...+..+..++...|++++|
T Consensus        14 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A   91 (126)
T 3upv_A           14 YFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKATAQIAVKEYASA   91 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhCHHHH
Confidence            467899999999999998875 44789999999999999999999999999888643 3677888999999999999999


Q ss_pred             HHHHHHHHhcC
Q 030489           82 TMMFSKMLEKG   92 (176)
Q Consensus        82 ~~~~~~~~~~~   92 (176)
                      ...|++..+..
T Consensus        92 ~~~~~~al~~~  102 (126)
T 3upv_A           92 LETLDAARTKD  102 (126)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99999998764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.93  E-value=1.7e-09  Score=76.90  Aligned_cols=172  Identities=17%  Similarity=0.142  Sum_probs=125.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCcc----HHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCCc-ChhhHHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPD----IITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKP-NSITFTILIDAF   72 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~   72 (176)
                      +.+.|++++|...|++..+.+.. +    ..+|..+...+...|++++|+..+++....    +..| ...++..+...+
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            45789999999999999876432 3    367889999999999999999999876532    2222 245677788899


Q ss_pred             HhcCCHHHHHHHHHHHHhcCC-----CCcHHHHHHHHHHHHhcCC--------------------HHHHHHHHHHHHHC-
Q 030489           73 CKEGRMDDATMMFSKMLEKGP-----KANVVTYSCLIDGYFKSQN--------------------MKSAFDVYEEMCEN-  126 (176)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~--------------------~~~a~~~~~~m~~~-  126 (176)
                      ...|++++|...+++..+...     .....++..+...|...|+                    +++|...+++.... 
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            999999999999988765311     1124478888899999999                    99999999876432 


Q ss_pred             ---CCCCCCC-------------CChHHHHHHHHHHHHCC-CCCc----HHHHHHHHHHhhcccCcccc
Q 030489          127 ---NISPNIA-------------GRPTEAMQLYDSMLRNG-IMPD----GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       127 ---~~~~~~~-------------~~~~~a~~~~~~m~~~g-~~p~----~~~~~~l~~~~~~~g~~~~A  174 (176)
                         +..+...             |++++|.+.+++..+.. -.++    ..++..+...+...|+.++|
T Consensus       178 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  246 (406)
T 3sf4_A          178 TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  246 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence               1111111             99999999998886321 0112    23677888888888887765

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.92  E-value=6.3e-09  Score=79.64  Aligned_cols=121  Identities=11%  Similarity=0.003  Sum_probs=106.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|++.|++..+.. +.+...|..+..++...|++++|++.|++..+.... +...+..+..++.+.|++++ 
T Consensus       443 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-  519 (681)
T 2pzi_A          443 LLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-  519 (681)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-
T ss_pred             HHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-
Confidence            567899999999999998875 347899999999999999999999999998876432 67788889999999999999 


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+.|++..+.+.. +...|..+..+|.+.|++++|.+.|++..+.
T Consensus       520 ~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  563 (681)
T 2pzi_A          520 HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRTLDEVPPT  563 (681)
T ss_dssp             TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHTSCTT
T ss_pred             HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHHHHhhccc
Confidence            9999999988755 8889999999999999999999999987553

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.91  E-value=3.1e-07  Score=63.05  Aligned_cols=146  Identities=10%  Similarity=0.027  Sum_probs=102.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCcc-----HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC---CcC--hhhHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPD-----IITYNTIICGYCSLNRLDEAVQLFEKLTCVQL---KPN--SITFTILIDA   71 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~---~~~--~~~~~~ll~~   71 (176)
                      +...|++++|.+.+....+.....+     ...+..+...+...|++++|+..+++......   .+.  ..+++.+...
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            4567899999999988876532211     12344566677888999999999998875321   111  4478888899


Q ss_pred             HHhcCCHHHHHHHHHHHH---hcCC-CC--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC----C--------
Q 030489           72 FCKEGRMDDATMMFSKML---EKGP-KA--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI----A--------  133 (176)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~---~~~~-~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~--------  133 (176)
                      |...|++++|...|++..   +... .+  ...+++.+...|.+.|++++|+..+++........+.    .        
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            999999999999999877   2211 11  2258889999999999999999999987543211111    1        


Q ss_pred             -----CChHHH-HHHHHHHH
Q 030489          134 -----GRPTEA-MQLYDSML  147 (176)
Q Consensus       134 -----~~~~~a-~~~~~~m~  147 (176)
                           |+.++| ...+++..
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                 778888 66666554

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.91  E-value=9.9e-08  Score=55.79  Aligned_cols=101  Identities=13%  Similarity=0.113  Sum_probs=83.8

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|+...... +.+...+..+...+...|++++|+..+++..+.. +.+...+..+..++...|++++|
T Consensus        14 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A   91 (118)
T 1elw_A           14 ALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEEA   91 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHH
Confidence            457899999999999998764 4478899999999999999999999999988764 23677888899999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      .+.+++..+.++. +...+..+..
T Consensus        92 ~~~~~~~~~~~~~-~~~~~~~l~~  114 (118)
T 1elw_A           92 KRTYEEGLKHEAN-NPQLKEGLQN  114 (118)
T ss_dssp             HHHHHHHHTTCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHcCCC-CHHHHHHHHH
Confidence            9999999887543 5555555443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.91  E-value=3.2e-08  Score=60.71  Aligned_cols=89  Identities=16%  Similarity=0.069  Sum_probs=78.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|+...... +.+...|..+..++...|++++|+..|+....... .+...+..+..++...|++++|
T Consensus        28 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A  105 (142)
T 2xcb_A           28 QYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI-NEPRFPFHAAECHLQLGDLDGA  105 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHHcCCHHHH
Confidence            467899999999999998875 44889999999999999999999999999988653 3677788899999999999999


Q ss_pred             HHHHHHHHhcC
Q 030489           82 TMMFSKMLEKG   92 (176)
Q Consensus        82 ~~~~~~~~~~~   92 (176)
                      .+.|+...+..
T Consensus       106 ~~~~~~al~~~  116 (142)
T 2xcb_A          106 ESGFYSARALA  116 (142)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99999988764

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.91  E-value=1.7e-07  Score=57.18  Aligned_cols=100  Identities=11%  Similarity=-0.005  Sum_probs=87.2

Q ss_pred             CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHH
Q 030489           24 EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN----SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVT   99 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   99 (176)
                      +.+...+..+...+...|++++|++.|++..+.  .|+    ...+..+..++...|++++|...+++..+.... +...
T Consensus        25 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~  101 (148)
T 2dba_A           25 ASSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKA  101 (148)
T ss_dssp             CCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHH
Confidence            346788999999999999999999999998876  455    677888889999999999999999999887544 7888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489          100 YSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       100 ~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      |..+..+|...|++++|...|++....
T Consensus       102 ~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          102 LYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            999999999999999999999988764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.90  E-value=1.7e-09  Score=76.97  Aligned_cols=173  Identities=14%  Similarity=0.069  Sum_probs=100.8

Q ss_pred             chhhCChhHHHHHHHHHhhCC----C-CccHHHHHHHHHHHHhCCC--------------------hhHHHHHHHHHHhC
Q 030489            2 LIKECHLDAALKLFGQLTDRG----L-EPDIITYNTIICGYCSLNR--------------------LDEAVQLFEKLTCV   56 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~m~~~   56 (176)
                      |...|++++|...+++..+..    . .....++..+...+...|+                    +++|+..+.+....
T Consensus        97 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~  176 (406)
T 3sf4_A           97 LKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSL  176 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            345677777777777665431    0 0113466677777777777                    77777777654431


Q ss_pred             ----CCCc-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-C----cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           57 ----QLKP-NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK-A----NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        57 ----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                          +..| ...++..+...+...|++++|...+++..+.... +    ...++..+...|...|++++|...+++....
T Consensus       177 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  256 (406)
T 3sf4_A          177 VTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLL  256 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence                1111 2335566667777777777777777766532110 1    1236667777777778888777777766432


Q ss_pred             CCCCCCC-----------------CChHHHHHHHHHHHHC----CCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          127 NISPNIA-----------------GRPTEAMQLYDSMLRN----GIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       127 ~~~~~~~-----------------~~~~~a~~~~~~m~~~----g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                      .......                 |++++|.+.+++..+.    +-.+. ..++..+...+...|+.++|
T Consensus       257 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  326 (406)
T 3sf4_A          257 ARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQA  326 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHH
Confidence            1111111                 7777787777776532    11111 34566677777777776655

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.90  E-value=6.8e-08  Score=66.71  Aligned_cols=155  Identities=14%  Similarity=0.154  Sum_probs=112.3

Q ss_pred             HHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-CcChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           11 ALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-KPNSITFTILIDAFCKEGRMDDATMMFSKML   89 (176)
Q Consensus        11 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   89 (176)
                      |+..|+++.+.+ +++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++|.
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            566677776654 45666667888999999999999999998866553 2366777888899999999999999999998


Q ss_pred             hcCCCC-----cHHHHHHHHHHH--HhcC--CHHHHHHHHHHHHHCCCCCC--CC----------CChHHHHHHHHHHHH
Q 030489           90 EKGPKA-----NVVTYSCLIDGY--FKSQ--NMKSAFDVYEEMCENNISPN--IA----------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        90 ~~~~~~-----~~~~~~~l~~~~--~~~g--~~~~a~~~~~~m~~~~~~~~--~~----------~~~~~a~~~~~~m~~  148 (176)
                      +..  |     +..+...|..++  ...|  ++++|..+|+++.+..  |+  ..          |++++|.+.++.+.+
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 NAI--EDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HHS--CHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hcC--ccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            763  4     356666666663  3334  8999999999987643  32  11          999999999997764


Q ss_pred             C-----CC---CC-cHHHHHHHHHHhhcccC
Q 030489          149 N-----GI---MP-DGLLLSTLADYNLQSSG  170 (176)
Q Consensus       149 ~-----g~---~p-~~~~~~~l~~~~~~~g~  170 (176)
                      .     +.   .| +..+...++......|+
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   24 44555455555555564

>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=98.90  E-value=8.3e-08  Score=62.95  Aligned_cols=146  Identities=12%  Similarity=0.071  Sum_probs=116.7

Q ss_pred             HHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC----CHHHHHHHH
Q 030489           10 AALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG----RMDDATMMF   85 (176)
Q Consensus        10 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~   85 (176)
                      +|++.|++..+.|   +...+..+...|...+++++|+..|++..+.|   +...+..|-..|.. +    ++++|.++|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            5778888888875   78889999999999999999999999998875   56777778888877 6    899999999


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCC---CCCC--------------CChHHHHHHHH
Q 030489           86 SKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNIS---PNIA--------------GRPTEAMQLYD  144 (176)
Q Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~---~~~~--------------~~~~~a~~~~~  144 (176)
                      ++..+.|   +...+..|-..|..    .+++++|+.+|++..+.+..   +...              ++.++|+.+|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            9998775   67788888888877    88999999999998876652   2221              68999999999


Q ss_pred             HHHHCCCCCcHHHHHHHHHHhhc
Q 030489          145 SMLRNGIMPDGLLLSTLADYNLQ  167 (176)
Q Consensus       145 ~m~~~g~~p~~~~~~~l~~~~~~  167 (176)
                      +..+.+  .+...+..|-..|..
T Consensus       154 ~A~~~~--~~~~a~~~Lg~~y~~  174 (212)
T 3rjv_A          154 GSSSLS--RTGYAEYWAGMMFQQ  174 (212)
T ss_dssp             HHHHTS--CTTHHHHHHHHHHHH
T ss_pred             HHHHcC--CCHHHHHHHHHHHHc
Confidence            998762  233455555555543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=98.90  E-value=3.6e-07  Score=67.21  Aligned_cols=113  Identities=16%  Similarity=0.170  Sum_probs=62.1

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHh----CCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh----cC
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EG   76 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~   76 (176)
                      .+++++|.+.|++..+.|   +...+..|...|..    .+++++|++.|++....|   +...+..|-..|..    .+
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            455666666666665543   34455555555555    566666666666655543   33444445555555    55


Q ss_pred             CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHC
Q 030489           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~  126 (176)
                      ++++|.+.|++..+.+   +...+..|...|..    .+++++|++.|++..+.
T Consensus       130 ~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~  180 (490)
T 2xm6_A          130 DKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ  180 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            5666666666555543   34445555555554    45555555555555443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.90  E-value=7.4e-08  Score=70.12  Aligned_cols=171  Identities=17%  Similarity=0.104  Sum_probs=114.1

Q ss_pred             chhhCChhHHHHHHHHHhhC--------CCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-----C-CC-cChhhHH
Q 030489            2 LIKECHLDAALKLFGQLTDR--------GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-----Q-LK-PNSITFT   66 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~-~~-~~~~~~~   66 (176)
                      +...|++++|++.|++..+.        ..+....+|+.+..+|...|++++|+..+++..+.     + .. ....++.
T Consensus        61 ~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~  140 (472)
T 4g1t_A           61 KHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDC  140 (472)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHH
Confidence            34679999999999876542        12335688999999999999999999999877542     1 11 1345565


Q ss_pred             HHHHHHHhc--CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHH---HHhcCCHHHHHHHHHHHHHCCCCCCCC--------
Q 030489           67 ILIDAFCKE--GRMDDATMMFSKMLEKGPKANVVTYSCLIDG---YFKSQNMKSAFDVYEEMCENNISPNIA--------  133 (176)
Q Consensus        67 ~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~g~~~~a~~~~~~m~~~~~~~~~~--------  133 (176)
                      .+..++.+.  +++++|.+.|++..+..+. +...+..+..+   +...++.++|++.+++..+.+......        
T Consensus       141 ~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~~~~~~l~~~~  219 (472)
T 4g1t_A          141 EEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQYLKVLLALKL  219 (472)
T ss_dssp             HHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcchHHHHHHHHHH
Confidence            555555544  5689999999999887654 56666555544   344577788888888776543221111        


Q ss_pred             -------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          134 -------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 -------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                             ++.++|.+++++..... ..+...+..+...+...|+.++|
T Consensus       220 ~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A  266 (472)
T 4g1t_A          220 HKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKA  266 (472)
T ss_dssp             HHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHH
Confidence                   66778888887776542 23455667777777777776654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.90  E-value=3e-09  Score=73.51  Aligned_cols=173  Identities=13%  Similarity=0.050  Sum_probs=116.8

Q ss_pred             chhhCChhHHHHHHHHHhhC----CCC-ccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-CcC----hhhHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR----GLE-PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-KPN----SITFTILIDA   71 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~~   71 (176)
                      +...|++++|.+.+++..+.    +.+ ....++..+...+...|++++|+..+++..+... .++    ..++..+...
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            45678899999998876543    212 2356788888889999999999999887654311 111    3367777788


Q ss_pred             HHhcCC--------------------HHHHHHHHHHHHhc----CC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           72 FCKEGR--------------------MDDATMMFSKMLEK----GP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        72 ~~~~~~--------------------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +...|+                    +++|.+.+++....    +. .....++..+...|...|++++|...+++..+.
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            888888                    88888888776532    11 112446777888888899999999888877542


Q ss_pred             CCCCCC-C----------------CChHHHHHHHHHHHHC----CCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          127 NISPNI-A----------------GRPTEAMQLYDSMLRN----GIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       127 ~~~~~~-~----------------~~~~~a~~~~~~m~~~----g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ...... .                |++++|...+++..+.    +..+. ..++..+...+...|+.++|
T Consensus       213 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  282 (338)
T 3ro2_A          213 AKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKA  282 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHH
Confidence            111111 0                8888888888877632    11111 44667777888888887765

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.90  E-value=5.4e-08  Score=58.12  Aligned_cols=97  Identities=13%  Similarity=0.034  Sum_probs=83.6

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (176)
                      ..+..+...+.+.|++++|+..|++..+... .+...+..+..++...|++++|+..|++..+..+. +...+..+..+|
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~   95 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSH   95 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            3456677888999999999999999887642 37788888899999999999999999999988755 788999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHC
Q 030489          108 FKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       108 ~~~g~~~~a~~~~~~m~~~  126 (176)
                      ...|++++|...+++..+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           96 TNEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHC-
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            9999999999999988754

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.88  E-value=5.4e-08  Score=58.61  Aligned_cols=98  Identities=12%  Similarity=0.160  Sum_probs=73.4

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--Cc----HHHH
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK--AN----VVTY  100 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~  100 (176)
                      ...+..+...+.+.|++++|+..|++..+... -+...|..+..+|.+.|++++|++.+++.++....  ++    ..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p-~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELDP-SNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            45677788888899999999999988877642 35677888888889999999999888887754321  11    2356


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489          101 SCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus       101 ~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      ..+..++...|++++|++.|++...
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6677778888888888888877654

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=98.88  E-value=4e-07  Score=66.95  Aligned_cols=114  Identities=17%  Similarity=0.094  Sum_probs=73.0

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHh----CCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh----cC
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EG   76 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~   76 (176)
                      .+++++|.+.|++..+.|   +...+..|...|..    .+++++|+..|++....|   +...+..|...|..    .+
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            566777777777776654   45556666666666    667777777777766654   44555556666655    56


Q ss_pred             CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCC
Q 030489           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENN  127 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~  127 (176)
                      +.++|.+.|++..+.+   +...+..+...|..    .+++++|...|++..+.+
T Consensus       166 d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~  217 (490)
T 2xm6_A          166 DYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG  217 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC
Confidence            6777777777666653   45566666666665    566677776666655543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.88  E-value=7.5e-08  Score=68.46  Aligned_cols=168  Identities=9%  Similarity=0.035  Sum_probs=120.8

Q ss_pred             chhhCChhHHHHHHHHHhhCC--CC---ccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----C-CCc-ChhhHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRG--LE---PDIITYNTIICGYCSLNRLDEAVQLFEKLTCV----Q-LKP-NSITFTILID   70 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~--~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~-~~~-~~~~~~~ll~   70 (176)
                      +...|++++|.+.|++..+..  .+   ....++..+...|...|++++|+..+.+....    + ..+ ...+++.+..
T Consensus       111 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  190 (378)
T 3q15_A          111 EFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAG  190 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHH
Confidence            356899999999999987541  11   13567889999999999999999999887642    1 111 2456778889


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc----CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCCC-------
Q 030489           71 AFCKEGRMDDATMMFSKMLEK----GPK-ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE-----NNISPNIA-------  133 (176)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~-------  133 (176)
                      +|...|++++|.+.|++..+.    +.+ ....+++.+..+|...|++++|...+++...     ..... ..       
T Consensus       191 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~-~~~~~~la~  269 (378)
T 3q15_A          191 NYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLL-PKVLFGLSW  269 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGH-HHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhH-HHHHHHHHH
Confidence            999999999999999987753    111 1245788899999999999999999998865     22111 11       


Q ss_pred             -----CChHHHHHHHHHHHHCCC---CCc-HHHHHHHHHHhhcccC
Q 030489          134 -----GRPTEAMQLYDSMLRNGI---MPD-GLLLSTLADYNLQSSG  170 (176)
Q Consensus       134 -----~~~~~a~~~~~~m~~~g~---~p~-~~~~~~l~~~~~~~g~  170 (176)
                           |++++|...+++..+..-   .|. ...+..+...+...++
T Consensus       270 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~  315 (378)
T 3q15_A          270 TLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVD  315 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCC
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCc
Confidence                 999999999999885321   122 3344555555555554

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.87  E-value=1.2e-07  Score=67.01  Aligned_cols=172  Identities=9%  Similarity=-0.062  Sum_probs=118.1

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccH----HHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-CcC----hhhHHHHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDI----ITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-KPN----SITFTILIDAFC   73 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~~~~   73 (176)
                      ...|++++|...+++........+.    .+++.+...+...|++++|...+++...... .++    ..++..+...+.
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            4679999999999998776432232    2566777888999999999999988764311 111    233566778889


Q ss_pred             hcCCHHHHHHHHHHHHhc----CCC--C-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC--C-----------
Q 030489           74 KEGRMDDATMMFSKMLEK----GPK--A-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI--A-----------  133 (176)
Q Consensus        74 ~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~--~-----------  133 (176)
                      ..|++++|...+++..+.    +..  | ...++..+...+...|++++|...+++..........  .           
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            999999999999987643    221  2 3456677888999999999999999988654332211  1           


Q ss_pred             ---CChHHHHHHHHHHHHCCCCCc--HHHHH----HHHHHhhcccCcccc
Q 030489          134 ---GRPTEAMQLYDSMLRNGIMPD--GLLLS----TLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ---~~~~~a~~~~~~m~~~g~~p~--~~~~~----~l~~~~~~~g~~~~A  174 (176)
                         |++++|...+++.....-.++  .....    .....+...|+.++|
T Consensus       185 ~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A  234 (373)
T 1hz4_A          185 LARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAA  234 (373)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHH
Confidence               999999999998874311111  11111    233446677877654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.87  E-value=6.9e-08  Score=68.32  Aligned_cols=173  Identities=13%  Similarity=0.037  Sum_probs=106.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCC---Cc--cHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCC--c-ChhhHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGL---EP--DIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLK--P-NSITFTILI   69 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~--~-~~~~~~~ll   69 (176)
                      +...|++++|.+.+++......   .+  ...++..+...+...|++++|+..+++....    +..  | ....+..+.
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            3456888888888877654210   11  1233566777788888888888888776542    221  2 233455566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCC----CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC-C-----------
Q 030489           70 DAFCKEGRMDDATMMFSKMLEKGPK----ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI-A-----------  133 (176)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~-----------  133 (176)
                      ..+...|++++|...+++.......    ....++..+...+...|++++|...+++.......+.. .           
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            7778888888888888877654321    12345667777788888888888888876543111111 0           


Q ss_pred             ------CChHHHHHHHHHHHHCCCCCc---HHHHHHHHHHhhcccCcccc
Q 030489          134 ------GRPTEAMQLYDSMLRNGIMPD---GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ------~~~~~a~~~~~~m~~~g~~p~---~~~~~~l~~~~~~~g~~~~A  174 (176)
                            |+.++|...+++.......++   ...+..+...+...|+.++|
T Consensus       223 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  272 (373)
T 1hz4_A          223 IYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPA  272 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHH
Confidence                  778888888777764322111   22445666777777776654

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.87  E-value=1.1e-07  Score=58.83  Aligned_cols=89  Identities=10%  Similarity=0.024  Sum_probs=78.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|...|+...... +.+...|..+..++...|++++|+..|++...... .+...+..+..+|...|++++|
T Consensus        31 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~~g~~~~A  108 (148)
T 2vgx_A           31 QYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI-XEPRFPFHAAECLLQXGELAEA  108 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHHH
Confidence            467899999999999998875 44889999999999999999999999999887642 3677888899999999999999


Q ss_pred             HHHHHHHHhcC
Q 030489           82 TMMFSKMLEKG   92 (176)
Q Consensus        82 ~~~~~~~~~~~   92 (176)
                      ...|+...+..
T Consensus       109 ~~~~~~al~~~  119 (148)
T 2vgx_A          109 ESGLFLAQELI  119 (148)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHC
Confidence            99999988764

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.85  E-value=6.2e-08  Score=61.57  Aligned_cols=121  Identities=12%  Similarity=0.018  Sum_probs=92.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHH-HHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICG-YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +.+.|++++|+..|+...+..+  +...+..+... +...+...+++..+++..+... -+...+..+..++...|++++
T Consensus        50 ~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~  126 (176)
T 2r5s_A           50 LLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLELHQQAAESPELKRLEQELAANP-DNFELACELAVQYNQVGRDEE  126 (176)
T ss_dssp             HHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHHHhhcccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcccHHH
Confidence            5678999999999999877643  44443332222 2233344567888988877532 267888899999999999999


Q ss_pred             HHHHHHHHHhcCCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        81 a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      |...|++..+..+.+ +...+..+...+...|+.++|...|++...
T Consensus       127 A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          127 ALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            999999999876543 356899999999999999999999987653

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.85  E-value=2e-08  Score=59.55  Aligned_cols=88  Identities=9%  Similarity=0.043  Sum_probs=68.4

Q ss_pred             hhCChhHHHHHHHHHhhCC--CCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            4 KECHLDAALKLFGQLTDRG--LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      ..|++++|+..|++..+.+  -+.+...+..+..+|...|++++|+..|++..+.... +..++..+..++.+.|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHH
Confidence            4688999999999988764  2335678888999999999999999999988876433 577788888899999999999


Q ss_pred             HHHHHHHHhcC
Q 030489           82 TMMFSKMLEKG   92 (176)
Q Consensus        82 ~~~~~~~~~~~   92 (176)
                      ...|++.....
T Consensus        81 ~~~~~~al~~~   91 (117)
T 3k9i_A           81 VELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99999887654

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.84  E-value=6.4e-08  Score=57.72  Aligned_cols=100  Identities=16%  Similarity=0.288  Sum_probs=76.8

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--Cc----HHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK--AN----VVT   99 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~   99 (176)
                      ....|..+...+...|++++|+..|++..... +.+...+..+...+...|++++|...+++..+....  ++    ..+
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   81 (131)
T 1elr_A            3 QALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHH
Confidence            34667778888888888999988888877654 336677778888888888999888888888765321  12    667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489          100 YSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       100 ~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      |..+..+|...|++++|...|++....
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            888888888888888888888887664

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.83  E-value=2.2e-07  Score=56.72  Aligned_cols=101  Identities=20%  Similarity=0.125  Sum_probs=83.0

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCcc----HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPD----IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR   77 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   77 (176)
                      +.+.|++++|.+.|++..+..  |+    ...|..+..++...|++++|+..+++..+.. +.+...+..+..++...|+
T Consensus        38 ~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~  114 (148)
T 2dba_A           38 LFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRRSQALEKLGR  114 (148)
T ss_dssp             HHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHHHHHHHHHTC
T ss_pred             HHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHHHHHHHHcCC
Confidence            457899999999999998874  44    7888899999999999999999999988763 2367788888999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 030489           78 MDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (176)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (176)
                      +++|...|++..+.... +...+..+...
T Consensus       115 ~~~A~~~~~~al~~~p~-~~~~~~~l~~~  142 (148)
T 2dba_A          115 LDQAVLDLQRCVSLEPK-NKVFQEALRNI  142 (148)
T ss_dssp             HHHHHHHHHHHHHHCSS-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCC-cHHHHHHHHHH
Confidence            99999999999987543 55555554443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.83  E-value=1.9e-07  Score=64.56  Aligned_cols=147  Identities=12%  Similarity=0.054  Sum_probs=110.0

Q ss_pred             chhhCChhHHHHHHHHHhhCCC-CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc-----ChhhHHHHHHHH--H
Q 030489            2 LIKECHLDAALKLFGQLTDRGL-EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP-----NSITFTILIDAF--C   73 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-----~~~~~~~ll~~~--~   73 (176)
                      +...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.++.|.+.  .|     +..+...|..++  .
T Consensus       110 ~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l  187 (310)
T 3mv2_B          110 QAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYIKF  187 (310)
T ss_dssp             HHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHHHHHHH
Confidence            4568999999999999877764 237788889999999999999999999999875  55     356666676663  3


Q ss_pred             hcC--CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-----C---CCCCC----------
Q 030489           74 KEG--RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN-----I---SPNIA----------  133 (176)
Q Consensus        74 ~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~-----~---~~~~~----------  133 (176)
                      ..|  +...|..+|+++.+..  |+..+-..++.++.+.|++++|.+.++.+.+.-     .   .|+..          
T Consensus       188 ~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~  265 (310)
T 3mv2_B          188 ATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLA  265 (310)
T ss_dssp             HHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHH
T ss_pred             HhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHH
Confidence            334  8999999999997653  443344455558999999999999999765421     1   13322          


Q ss_pred             ---CChHHHHHHHHHHHHCCCCCcHH
Q 030489          134 ---GRPTEAMQLYDSMLRNGIMPDGL  156 (176)
Q Consensus       134 ---~~~~~a~~~~~~m~~~g~~p~~~  156 (176)
                         |+  +|.++++++.+.  .|+..
T Consensus       266 ~~lgk--~a~~l~~qL~~~--~P~hp  287 (310)
T 3mv2_B          266 LMQGL--DTEDLTNQLVKL--DHEHA  287 (310)
T ss_dssp             HHTTC--TTHHHHHHHHHT--TCCCH
T ss_pred             HHhCh--HHHHHHHHHHHh--CCCCh
Confidence               55  778888888865  45543

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.82  E-value=3.6e-08  Score=68.27  Aligned_cols=144  Identities=10%  Similarity=-0.020  Sum_probs=91.0

Q ss_pred             hhhCChhHHHHHHHHHhhC----CCCc-cHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCCc-ChhhHHHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDR----GLEP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKP-NSITFTILIDAF   72 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~   72 (176)
                      ...|++++|.+.|.+..+.    +-++ -..+|+.+...|.+.|++++|+..|++....    |-.. -..++..+...|
T Consensus        47 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~  126 (307)
T 2ifu_A           47 KNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLM  126 (307)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            4457777777777766543    1111 1356777777788888888888888765432    2111 134566667777


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCC---C--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----CC----------
Q 030489           73 CKEGRMDDATMMFSKMLEKGPK---A--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPN----IA----------  133 (176)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~----------  133 (176)
                      .. |++++|+..|++..+....   +  ...+++.+...|.+.|++++|+..|++.........    ..          
T Consensus       127 ~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~  205 (307)
T 2ifu_A          127 EP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQ  205 (307)
T ss_dssp             TT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             Hc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHH
Confidence            77 8888888888776643211   0  145677777888888888888888887654211111    00          


Q ss_pred             ---CChHHHHHHHHHHH
Q 030489          134 ---GRPTEAMQLYDSML  147 (176)
Q Consensus       134 ---~~~~~a~~~~~~m~  147 (176)
                         |++++|...|++..
T Consensus       206 ~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          206 LHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHTTCHHHHHHHHHHHT
T ss_pred             HHcCCHHHHHHHHHHHh
Confidence               78888888888887

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.82  E-value=1.1e-07  Score=65.26  Aligned_cols=122  Identities=16%  Similarity=0.156  Sum_probs=94.5

Q ss_pred             hhhCChhHHHHHHHHHhhCCCC-cc----HHHHHHHHHHHHhCCChhHHHHHHHHHHh----C-CCCc-ChhhHHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLE-PD----IITYNTIICGYCSLNRLDEAVQLFEKLTC----V-QLKP-NSITFTILIDA   71 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~-~~~~-~~~~~~~ll~~   71 (176)
                      ...|++++|++.|++..+.... ++    ..+++.+...|...|++++|+..|++..+    . +..+ ...++..+...
T Consensus       126 ~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~  205 (293)
T 3u3w_A          126 LKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKA  205 (293)
T ss_dssp             TTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHH
T ss_pred             HcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHH
Confidence            4567999999999999874222 22    34799999999999999999999998874    1 2222 23477888999


Q ss_pred             HHhcCCHHHHHHHHHHHHhc----CCCC-cHHHHHHHHHHHHhcCC-HHHHHHHHHHHH
Q 030489           72 FCKEGRMDDATMMFSKMLEK----GPKA-NVVTYSCLIDGYFKSQN-MKSAFDVYEEMC  124 (176)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~-~~~a~~~~~~m~  124 (176)
                      |.+.|++++|...+++..+.    +..+ -..+|..+..+|.+.|+ +++|...+++..
T Consensus       206 y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          206 LYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            99999999999999987643    2222 26789999999999994 699999997754

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.82  E-value=1.4e-07  Score=66.31  Aligned_cols=118  Identities=11%  Similarity=0.019  Sum_probs=95.8

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC--------------hhhHHHHHHHH
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN--------------SITFTILIDAF   72 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------~~~~~~ll~~~   72 (176)
                      ++++|.+.|+...+.. +-+...|..+...+.+.|++++|+..|++.........              ...|..+..+|
T Consensus       128 ~~~~A~~~~~~a~~~~-p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~  206 (336)
T 1p5q_A          128 SFEKAKESWEMNSEEK-LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCH  206 (336)
T ss_dssp             EEECCCCGGGCCHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ecccccchhcCCHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555554433321 22567888999999999999999999999887643221              47889999999


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           73 CKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+.|++++|...+++..+.... +...|..+..+|...|++++|...|++..+.
T Consensus       207 ~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  259 (336)
T 1p5q_A          207 LKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQL  259 (336)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            9999999999999999988654 8899999999999999999999999998875

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.81  E-value=2e-07  Score=58.38  Aligned_cols=91  Identities=16%  Similarity=0.109  Sum_probs=79.8

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|++.|++..+.. +.+...|..+..+|.+.|++++|+..|++..+... -+...|..+..+|...|++++|
T Consensus        21 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A   98 (164)
T 3sz7_A           21 AMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP-KYSKAWSRLGLARFDMADYKGA   98 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHccCHHHH
Confidence            567899999999999998875 34789999999999999999999999999988753 3678889999999999999999


Q ss_pred             HHHHHHHHhcCCC
Q 030489           82 TMMFSKMLEKGPK   94 (176)
Q Consensus        82 ~~~~~~~~~~~~~   94 (176)
                      .+.|++..+....
T Consensus        99 ~~~~~~al~~~p~  111 (164)
T 3sz7_A           99 KEAYEKGIEAEGN  111 (164)
T ss_dssp             HHHHHHHHHHHSS
T ss_pred             HHHHHHHHHhCCC
Confidence            9999999876543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.80  E-value=1.2e-08  Score=60.46  Aligned_cols=87  Identities=13%  Similarity=0.099  Sum_probs=71.6

Q ss_pred             hCCChhHHHHHHHHHHhCC--CCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHH
Q 030489           39 SLNRLDEAVQLFEKLTCVQ--LKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSA  116 (176)
Q Consensus        39 ~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  116 (176)
                      ..|++++|+..|++..+.+  -+-+...+..+..+|...|++++|...|++..+..+. +..++..+..+|.+.|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHH
Confidence            4688999999999998864  2335677888889999999999999999999988765 788999999999999999999


Q ss_pred             HHHHHHHHHC
Q 030489          117 FDVYEEMCEN  126 (176)
Q Consensus       117 ~~~~~~m~~~  126 (176)
                      ...+++....
T Consensus        81 ~~~~~~al~~   90 (117)
T 3k9i_A           81 VELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999987654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.80  E-value=1.6e-07  Score=54.38  Aligned_cols=91  Identities=14%  Similarity=0.120  Sum_probs=78.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc--ChhhHHHHHHHHHhc-CCH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP--NSITFTILIDAFCKE-GRM   78 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~-~~~   78 (176)
                      +.+.|++++|...|++..+.. +.+...|..+...+...|++++|++.+++..+.. +.  +...+..+..++.+. |++
T Consensus        16 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~~~~~~~~   93 (112)
T 2kck_A           16 QYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADALRYIEGKE   93 (112)
T ss_dssp             HHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHHTTCSSCS
T ss_pred             HHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHHHHHhCCH
Confidence            456899999999999998764 4478889999999999999999999999988763 23  577888899999999 999


Q ss_pred             HHHHHHHHHHHhcCCC
Q 030489           79 DDATMMFSKMLEKGPK   94 (176)
Q Consensus        79 ~~a~~~~~~~~~~~~~   94 (176)
                      ++|.+.++...+....
T Consensus        94 ~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           94 VEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HHHHHHHHHHGGGCCC
T ss_pred             HHHHHHHHHHhhcccC
Confidence            9999999999987543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.79  E-value=6.2e-08  Score=57.86  Aligned_cols=89  Identities=11%  Similarity=0.075  Sum_probs=77.1

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|...|++..+.. +.+...|..+..++...|++++|+..|++..+.... +...+..+..++...|++++|
T Consensus        27 ~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~~~g~~~~A  104 (121)
T 1hxi_A           27 MLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHNANAA  104 (121)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHH
Confidence            467899999999999999875 448899999999999999999999999998886433 677888899999999999999


Q ss_pred             HHHHHHHHhcC
Q 030489           82 TMMFSKMLEKG   92 (176)
Q Consensus        82 ~~~~~~~~~~~   92 (176)
                      ...|++..+..
T Consensus       105 ~~~~~~al~~~  115 (121)
T 1hxi_A          105 LASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHC--
T ss_pred             HHHHHHHHHhC
Confidence            99999988754

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.79  E-value=3.9e-08  Score=68.12  Aligned_cols=122  Identities=11%  Similarity=0.036  Sum_probs=82.0

Q ss_pred             chhhCChhHHHHHHHHHhhC----CCCc-cHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCCc-ChhhHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR----GLEP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKP-NSITFTILIDA   71 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~   71 (176)
                      |.+.|++++|++.|++..+.    |-+. ...+++.+...|.. |++++|+..|++....    +..+ ...++..+...
T Consensus        86 ~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~  164 (307)
T 2ifu_A           86 LKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRL  164 (307)
T ss_dssp             HHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHH
Confidence            34567888888888876532    2111 24667778888877 8888888888876643    1111 13566777788


Q ss_pred             HHhcCCHHHHHHHHHHHHhcC----CCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           72 FCKEGRMDDATMMFSKMLEKG----PKAN-VVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~~----~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      |.+.|++++|...|++..+..    ..+. ...+..+..++...|++++|...|++..
T Consensus       165 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          165 LVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            888888888888888777532    1111 2256666677777788888888888876

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.79  E-value=2.9e-07  Score=55.00  Aligned_cols=94  Identities=12%  Similarity=0.102  Sum_probs=62.6

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhCCCCcCh---hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc---HHHHHHHH
Q 030489           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS---ITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN---VVTYSCLI  104 (176)
Q Consensus        31 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  104 (176)
                      ..+...+...|++++|+..|+...+.... +.   ..+..+..++.+.|++++|...|+...+..+. +   ..++..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHH
Confidence            34555666777777777777776664321 22   35666667777777777777777777765433 3   55566777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHC
Q 030489          105 DGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       105 ~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+|.+.|++++|...|+++...
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            7777777777777777776653

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.77  E-value=6.7e-08  Score=58.22  Aligned_cols=97  Identities=19%  Similarity=0.203  Sum_probs=77.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC--CcC----hhhHHHHHHHHHhc
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL--KPN----SITFTILIDAFCKE   75 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~~~~ll~~~~~~   75 (176)
                      +.+.|++++|++.|++..+.. |.+...|+.+..+|.+.|++++|++.+++..+...  .++    ..+|..+..++...
T Consensus        18 ~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~   96 (127)
T 4gcn_A           18 AYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAGNAFQKQ   96 (127)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHHc
Confidence            567899999999999998875 44789999999999999999999999998876421  111    23567778889999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcHHHHH
Q 030489           76 GRMDDATMMFSKMLEKGPKANVVTYS  101 (176)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~~~~~~~~  101 (176)
                      |++++|++.|++.....  |+..+..
T Consensus        97 ~~~~~A~~~~~kal~~~--~~~~~~~  120 (127)
T 4gcn_A           97 NDLSLAVQWFHRSLSEF--RDPELVK  120 (127)
T ss_dssp             TCHHHHHHHHHHHHHHS--CCHHHHH
T ss_pred             CCHHHHHHHHHHHHhhC--cCHHHHH
Confidence            99999999999988754  4544443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.77  E-value=6.1e-07  Score=53.56  Aligned_cols=90  Identities=16%  Similarity=0.108  Sum_probs=75.0

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccH---HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC---hhhHHHHHHHHHhc
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDI---ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN---SITFTILIDAFCKE   75 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~   75 (176)
                      +.+.|++++|.+.|+...+..+. +.   ..+..+..++.+.|++++|+..|+........ +   ...+..+..++.+.
T Consensus        12 ~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~~~~~   89 (129)
T 2xev_A           12 ALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLSQYGE   89 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHHHHHT
T ss_pred             HHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHc
Confidence            45789999999999999876432 33   68888999999999999999999998876422 3   56678888999999


Q ss_pred             CCHHHHHHHHHHHHhcCC
Q 030489           76 GRMDDATMMFSKMLEKGP   93 (176)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~   93 (176)
                      |++++|...|+++.+..+
T Consensus        90 g~~~~A~~~~~~~~~~~p  107 (129)
T 2xev_A           90 GKNTEAQQTLQQVATQYP  107 (129)
T ss_dssp             TCHHHHHHHHHHHHHHST
T ss_pred             CCHHHHHHHHHHHHHHCC
Confidence            999999999999998753

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.77  E-value=1e-07  Score=64.97  Aligned_cols=123  Identities=8%  Similarity=-0.044  Sum_probs=94.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC--hhhHHHHHHHHHhcCCHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN--SITFTILIDAFCKEGRMD   79 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~   79 (176)
                      +...|++++|.++|+.+...+  |+......+...+.+.++|++|+..|+...+.. .|.  ...+..+-.++...|+++
T Consensus       112 L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~LG~~~  188 (282)
T 4f3v_A          112 EAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANLALFT  188 (282)
T ss_dssp             HHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHCCCHH
Confidence            567899999999998888764  433366667778899999999999997554321 111  236777788899999999


Q ss_pred             HHHHHHHHHHhcCCCC--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 030489           80 DATMMFSKMLEKGPKA--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  127 (176)
                      +|+..|++.......|  ..........++.+.|+.++|..+|+++....
T Consensus       189 eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          189 EAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            9999999987543324  44567778888999999999999999998753

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.76  E-value=4.9e-07  Score=61.89  Aligned_cols=85  Identities=11%  Similarity=0.076  Sum_probs=41.6

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      +.|++++|...|++..+.. +.+...|..+..++.+.|++++|+..+++..+... -+...+..+..++...|++++|..
T Consensus        16 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~   93 (281)
T 2c2l_A           16 VGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQCQLEMESYDEAIA   93 (281)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHH
Confidence            4455555555555554432 22444555555555555555555555555444321 134444444555555555555555


Q ss_pred             HHHHHHh
Q 030489           84 MFSKMLE   90 (176)
Q Consensus        84 ~~~~~~~   90 (176)
                      .|++..+
T Consensus        94 ~~~~al~  100 (281)
T 2c2l_A           94 NLQRAYS  100 (281)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555443

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.75  E-value=1.8e-07  Score=68.42  Aligned_cols=120  Identities=17%  Similarity=0.136  Sum_probs=98.1

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCcc--------------HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPD--------------IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI   67 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   67 (176)
                      |.+.|++++|...|++..+......              ..+|..+..+|.+.|++++|+..+++..+... .+...|..
T Consensus       278 ~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~  356 (457)
T 1kt0_A          278 YFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS-ANEKGLYR  356 (457)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-ccHHHHHH
Confidence            5678999999999999987532221              68899999999999999999999999988643 36788899


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHH-HHHHH
Q 030489           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFD-VYEEM  123 (176)
Q Consensus        68 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~-~~~~m  123 (176)
                      +..+|...|++++|...|++..+.... +...+..+..++.+.++++++.+ .++.|
T Consensus       357 ~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  412 (457)
T 1kt0_A          357 RGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQKKAKEHNERDRRIYANM  412 (457)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999987654 77889999999999999887763 45554

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.75  E-value=1e-07  Score=60.40  Aligned_cols=109  Identities=12%  Similarity=0.234  Sum_probs=87.6

Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHH-HHhcCCH--
Q 030489           37 YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG-YFKSQNM--  113 (176)
Q Consensus        37 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~--  113 (176)
                      +...|++++|+..++...+.. +.+...+..+...|...|++++|...|++..+.... +...+..+..+ |...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcch
Confidence            346788999999999887764 336788899999999999999999999999987644 77888888888 8899998  


Q ss_pred             HHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHC
Q 030489          114 KSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus       114 ~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~  149 (176)
                      ++|...+++.....  |+..             |++++|...|++..+.
T Consensus        98 ~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           98 AQTRAMIDKALALD--SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            99999999988753  3332             9999999999999865

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.74  E-value=1.1e-07  Score=61.25  Aligned_cols=124  Identities=15%  Similarity=0.051  Sum_probs=93.8

Q ss_pred             chhhCChhHHHHHHHHHhhC----CCC-ccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCCc--ChhhHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR----GLE-PDIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKP--NSITFTILID   70 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~--~~~~~~~ll~   70 (176)
                      +...|++++|.+.+++..+.    +.+ ....++..+...+...|++++|+..+++....    +-.|  ....+..+..
T Consensus        36 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  115 (203)
T 3gw4_A           36 YAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVAT  115 (203)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHH
Confidence            45689999999999988752    222 24577889999999999999999999876643    2121  2345777888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc---CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           71 AFCKEGRMDDATMMFSKMLEK---GPKAN--VVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~---~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      .+...|++++|...+++..+.   ...+.  ..++..+...+...|++++|...+++...
T Consensus       116 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          116 VALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            899999999999999987642   11112  23467888899999999999999987643

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.73  E-value=5.2e-08  Score=63.03  Aligned_cols=120  Identities=12%  Similarity=0.013  Sum_probs=90.8

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCC-cC--------------hhhHHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK-PN--------------SITFTILI   69 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~--------------~~~~~~ll   69 (176)
                      .|.++++.+.|+.-.+.. ......+..+...+...|++++|+..|++....... |+              ...+..+.
T Consensus        17 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la   95 (198)
T 2fbn_A           17 LYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLA   95 (198)
T ss_dssp             -----CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHH
Confidence            345555555554332221 224567888889999999999999999998875322 10              26788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           70 DAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+|.+.|++++|...+++..+.... +...+..+..+|...|++++|...|++....
T Consensus        96 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           96 TCYNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            9999999999999999999988544 8889999999999999999999999998764

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.72  E-value=2.5e-07  Score=55.87  Aligned_cols=88  Identities=11%  Similarity=0.084  Sum_probs=77.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|...|+...+.. +.+...|..+..++...|++++|+..+++..+... .+...+..+..++...|++++|
T Consensus        19 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A   96 (137)
T 3q49_B           19 LFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQCQLEMESYDEA   96 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHHHhhHHHH
Confidence            467899999999999998875 44788999999999999999999999999887643 3678889999999999999999


Q ss_pred             HHHHHHHHhc
Q 030489           82 TMMFSKMLEK   91 (176)
Q Consensus        82 ~~~~~~~~~~   91 (176)
                      ...|++..+.
T Consensus        97 ~~~~~~a~~~  106 (137)
T 3q49_B           97 IANLQRAYSL  106 (137)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998765

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.72  E-value=1.6e-07  Score=55.88  Aligned_cols=103  Identities=16%  Similarity=0.198  Sum_probs=83.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC--CcC----hhhHHHHHHHHHhc
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL--KPN----SITFTILIDAFCKE   75 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~~~~ll~~~~~~   75 (176)
                      +.+.|++++|...|++..+.. +.+...+..+...+...|++++|+..+++......  .++    ..++..+..++...
T Consensus        14 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~   92 (131)
T 1elr_A           14 AYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFKE   92 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHh
Confidence            457899999999999998764 44788899999999999999999999998876532  112    67788888999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 030489           76 GRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        76 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (176)
                      |++++|.+.|++..+..  |+...+..+....
T Consensus        93 ~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~  122 (131)
T 1elr_A           93 EKYKDAIHFYNKSLAEH--RTPDVLKKCQQAE  122 (131)
T ss_dssp             TCHHHHHHHHHHHHHHC--CCHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC--CCHHHHHHHHHHH
Confidence            99999999999998864  3555555554443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.71  E-value=1e-06  Score=60.53  Aligned_cols=122  Identities=15%  Similarity=0.136  Sum_probs=93.9

Q ss_pred             hhhCChhHHHHHHHHHhhCCC---Ccc--HHHHHHHHHHHHhCCChhHHHHHHHHHHh---C-CCCc--ChhhHHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGL---EPD--IITYNTIICGYCSLNRLDEAVQLFEKLTC---V-QLKP--NSITFTILIDA   71 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~---~-~~~~--~~~~~~~ll~~   71 (176)
                      ...|++++|++.+++..+...   .+.  ..+|+.+...|...|++++|+..|++...   . +..+  ...++..+...
T Consensus       126 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~  205 (293)
T 2qfc_A          126 LKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKA  205 (293)
T ss_dssp             HTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             hcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHH
Confidence            456899999999998875421   222  56899999999999999999999998762   2 1111  12578889999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcC----CC-CcHHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 030489           72 FCKEGRMDDATMMFSKMLEKG----PK-ANVVTYSCLIDGYFKSQNMKSA-FDVYEEMC  124 (176)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~~----~~-~~~~~~~~l~~~~~~~g~~~~a-~~~~~~m~  124 (176)
                      |.+.|++++|...+++..+..    .. .-..+|..+..+|.+.|++++| ...+++..
T Consensus       206 y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          206 LYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            999999999999999876532    11 1267889999999999999999 77776543

>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=98.71  E-value=5.8e-07  Score=72.84  Aligned_cols=132  Identities=11%  Similarity=0.064  Sum_probs=73.4

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +..+|..+..++...|++++|++.|.+.      -|...|..++.++.+.|++++|.+.|...++...  +....+.+..
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~--e~~Idt~Laf 1175 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIF 1175 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcc--cccccHHHHH
Confidence            4667777777777777777777777442      3666677777777777777777777776555432  2222233666


Q ss_pred             HHHhcCCHHHHHHHHHHHHH-----CCCCCCCCCChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCcccc
Q 030489          106 GYFKSQNMKSAFDVYEEMCE-----NNISPNIAGRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  174 (176)
                      +|++.+++++...+.+....     .|......|++++|..+|...         ..|..+...+.+.|+++.|
T Consensus      1176 aYAKl~rleele~fI~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~A 1240 (1630)
T 1xi4_A         1176 ALAKTNRLAELEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAA 1240 (1630)
T ss_pred             HHHhhcCHHHHHHHHhCCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHH
Confidence            66666666643333210000     000000006666666666653         2455555555555555444

>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=98.69  E-value=3.7e-07  Score=65.02  Aligned_cols=115  Identities=13%  Similarity=0.035  Sum_probs=93.5

Q ss_pred             chhhCChhHHHHHHHHHhhC---------------CCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHH
Q 030489            2 LIKECHLDAALKLFGQLTDR---------------GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFT   66 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~   66 (176)
                      +.+.|++++|++.|++..+.               -.+.+..+|..+..+|.+.|++++|+..+++..+... -+...+.
T Consensus       233 ~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~  311 (370)
T 1ihg_A          233 FFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP-SNTKALY  311 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc-hhHHHHH
Confidence            45789999999999988761               1123567888999999999999999999999887642 3677888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 030489           67 ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFD  118 (176)
Q Consensus        67 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  118 (176)
                      .+..+|...|++++|.+.|++..+.... +...+..+..++.+.++.+++.+
T Consensus       312 ~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          312 RRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999999999999887644 77788888888888877776654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.69  E-value=1.5e-07  Score=58.11  Aligned_cols=124  Identities=15%  Similarity=0.075  Sum_probs=87.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCC---Cc--cHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCCc-ChhhHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGL---EP--DIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKP-NSITFTILIDA   71 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~   71 (176)
                      +...|++++|.+.+++..+...   .+  ...++..+...+...|++++|+..+++....    +..+ ....+..+...
T Consensus        19 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~   98 (164)
T 3ro3_A           19 HYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNT   98 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            4567889999999888765411   11  1247788888889999999999999876542    1111 13456677788


Q ss_pred             HHhcCCHHHHHHHHHHHHhc----CC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           72 FCKEGRMDDATMMFSKMLEK----GP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +...|++++|.+.+++..+.    +. .....++..+...|...|++++|...+++..+
T Consensus        99 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           99 YTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            88899999999988877643    11 11235677788888889999999998887654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.68  E-value=6.5e-07  Score=55.91  Aligned_cols=100  Identities=10%  Similarity=0.079  Sum_probs=81.3

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhC--------C---------CCcChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCV--------Q---------LKPNSITFTILIDAFCKEGRMDDATMMFSKM   88 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--------~---------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~   88 (176)
                      ....+......+.+.|++++|+..|.+....        .         -+.+...|..+..+|.+.|++++|...++..
T Consensus        10 ~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           10 SVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            4566778888889999999999999887654        0         0113457778888899999999999999999


Q ss_pred             HhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           89 LEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        89 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+.++. +...|..+..+|...|++++|...|++....
T Consensus        90 l~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           90 LKREET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhcCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            888654 7888999999999999999999999988764

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.68  E-value=1.1e-06  Score=63.17  Aligned_cols=173  Identities=11%  Similarity=0.057  Sum_probs=118.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCcc----------------HHHHHHHHHHHHhCCChhHHHHHHHHHHhC-CCCcCh--
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPD----------------IITYNTIICGYCSLNRLDEAVQLFEKLTCV-QLKPNS--   62 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~--   62 (176)
                      +.+.|++++|++.|..+.+.....+                ...+..+...|.+.|++++|.+++...... +..++.  
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            4578999999999999987632211                134788999999999999999999887643 111122  


Q ss_pred             --hhHHHHHHHHHhcCCHHHHHHHHHHHHh----cCC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC-C-
Q 030489           63 --ITFTILIDAFCKEGRMDDATMMFSKMLE----KGP-KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNI-A-  133 (176)
Q Consensus        63 --~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~-  133 (176)
                        .+.+.+-..+...|+.+.|..+++....    .+. ..-..++..+...|...|++++|..++++....-...+. . 
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              1223333444567899999999887753    222 223567888999999999999999999987543222221 1 


Q ss_pred             ---------------CChHHHHHHHHHHHHC--CC-CC-c--HHHHHHHHHHhhcccCcccc
Q 030489          134 ---------------GRPTEAMQLYDSMLRN--GI-MP-D--GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ---------------~~~~~a~~~~~~m~~~--g~-~p-~--~~~~~~l~~~~~~~g~~~~A  174 (176)
                                     |++++|..++++....  .+ .| .  ...+..+...+...|++++|
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A  235 (434)
T 4b4t_Q          174 LVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTA  235 (434)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHH
T ss_pred             HHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHH
Confidence                           9999999999887621  12 22 1  23556666777777777665

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.67  E-value=1.2e-07  Score=66.65  Aligned_cols=120  Identities=19%  Similarity=0.147  Sum_probs=59.8

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHH------------------HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChh
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDII------------------TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI   63 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~------------------~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~   63 (176)
                      +.+.|++++|...|++....  .|+..                  .|..+..+|.+.|++++|+..+++..+.. +.+..
T Consensus       189 ~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~  265 (338)
T 2if4_A          189 LFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEE-EKNPK  265 (338)
T ss_dssp             TCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHH
Confidence            45788999999999998765  33332                  66667777777777777777777666543 22556


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHH-HHhcCCHHHHHHHHHHHHH
Q 030489           64 TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG-YFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        64 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~m~~  125 (176)
                      .+..+..+|...|++++|...|++..+.... +...+..+... ....+..+++..+|..|..
T Consensus       266 a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~  327 (338)
T 2if4_A          266 ALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQKQKEMYKGIFK  327 (338)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHTTC------------------------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            6666777777777777777777776655332 44444444443 2233455556666665543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.66  E-value=1.6e-06  Score=59.23  Aligned_cols=123  Identities=10%  Similarity=0.003  Sum_probs=85.5

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc--HHHHHHHHHHHHhcC
Q 030489           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN--VVTYSCLIDGYFKSQ  111 (176)
Q Consensus        34 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g  111 (176)
                      ...+...|++++|.++|..+...+  |+......+...+.+.++++.|+..|+...... .|.  ...+..+-.++...|
T Consensus       109 A~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~LG  185 (282)
T 4f3v_A          109 AACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANLA  185 (282)
T ss_dssp             HHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHCC
Confidence            355677888888888887776543  443355566667888888888888887554432 221  246777888899999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCCC--------------CChHHHHHHHHHHHHCCCCCcHHHHHHH
Q 030489          112 NMKSAFDVYEEMCENNISPNIA--------------GRPTEAMQLYDSMLRNGIMPDGLLLSTL  161 (176)
Q Consensus       112 ~~~~a~~~~~~m~~~~~~~~~~--------------~~~~~a~~~~~~m~~~g~~p~~~~~~~l  161 (176)
                      ++++|+..|++.......|...              |+.++|..+|+++...  .|+......|
T Consensus       186 ~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~aL  247 (282)
T 4f3v_A          186 LFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAAAL  247 (282)
T ss_dssp             CHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHH
Confidence            9999999999887543324422              9999999999999875  4554444443

>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=98.65  E-value=1.1e-06  Score=71.40  Aligned_cols=107  Identities=15%  Similarity=0.164  Sum_probs=74.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|.+.      -+...|..++.++.+.|++++|+++|....+..  ++....+.+..+|++.++++..
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            45678999999998653      378888899999999999999999998766653  3333334477777777777653


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      ..+.    +   .++...|..+...|...|++++|..+|...
T Consensus      1187 e~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA 1221 (1630)
T 1xi4_A         1187 EEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV 1221 (1630)
T ss_pred             HHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh
Confidence            3332    1   234455566667777777777777777664

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.64  E-value=3.9e-07  Score=67.14  Aligned_cols=123  Identities=11%  Similarity=0.039  Sum_probs=93.6

Q ss_pred             hhhCChhHHHHHHHHHhhC-----C--CCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-----CC-Cc-ChhhHHHH
Q 030489            3 IKECHLDAALKLFGQLTDR-----G--LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-----QL-KP-NSITFTIL   68 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~-~~-~~~~~~~l   68 (176)
                      -..|++++|+.++++..+.     |  .+....+++.|..+|...|++++|+.++++....     |. .| ...+++.|
T Consensus       320 ~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nL  399 (490)
T 3n71_A          320 RSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRA  399 (490)
T ss_dssp             HTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            3579999999999887643     2  1224678999999999999999999999876531     21 12 34668889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh-----cCCC-C-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           69 IDAFCKEGRMDDATMMFSKMLE-----KGPK-A-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        69 l~~~~~~~~~~~a~~~~~~~~~-----~~~~-~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      ...|...|++++|+.++++..+     .|.. | ...+.+.+-.++...+.+++|..++..+.+
T Consensus       400 a~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          400 GLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999987653     3433 1 234456677888889999999999998865

>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=98.60  E-value=6e-06  Score=50.33  Aligned_cols=114  Identities=15%  Similarity=0.080  Sum_probs=94.6

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh----cCCHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EGRMD   79 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~   79 (176)
                      -.+++++|++.|++..+.| .|...    +-..|...+..++|++.|++..+.|   +...+..|-..|..    .++++
T Consensus         7 ~~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~   78 (138)
T 1klx_A            7 VKKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLR   78 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             CccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHH
Confidence            4567899999999999987 33433    7777778888999999999998875   66778888888887    89999


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCC
Q 030489           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  128 (176)
                      +|.++|++..+.|   +...+..|-..|..    .+++++|...|++..+.|.
T Consensus        79 ~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           79 KAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            9999999999875   67788888888888    7899999999998877653

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.58  E-value=6.6e-07  Score=55.11  Aligned_cols=99  Identities=17%  Similarity=0.160  Sum_probs=76.7

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCC-cC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC----CCC-c
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK-PN----SITFTILIDAFCKEGRMDDATMMFSKMLEKG----PKA-N   96 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~-~   96 (176)
                      ..++..+...+...|++++|+..+++....... ++    ..++..+...+...|++++|...+++..+..    ..+ .
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            467888899999999999999999887653111 11    2467788889999999999999999876431    111 2


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           97 VVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        97 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      ..++..+...+...|++++|...+++...
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  117 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLA  117 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            45678888999999999999999988754

>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=98.57  E-value=3.3e-06  Score=52.59  Aligned_cols=99  Identities=11%  Similarity=-0.029  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc------Ch-----hhHHHHHHHHHhcCCHHHHHHHHHHHHhc----
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP------NS-----ITFTILIDAFCKEGRMDDATMMFSKMLEK----   91 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~------~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----   91 (176)
                      ...+......+.+.|++++|+..|++..+.....      +.     ..|+.+..++.+.|++++|+..+++.++.    
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            4556677788889999999999999887652220      22     27888899999999999999999999887    


Q ss_pred             ---CCCCcHHHH----HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           92 ---GPKANVVTY----SCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        92 ---~~~~~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                         ++. +...|    ...-.++...|++++|+..|++..+.
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               654 67788    99999999999999999999988653

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.57  E-value=1.1e-06  Score=54.78  Aligned_cols=91  Identities=16%  Similarity=0.177  Sum_probs=76.9

Q ss_pred             chhhCChhHHHHHHHHHhhC--------C---------CCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhh
Q 030489            2 LIKECHLDAALKLFGQLTDR--------G---------LEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSIT   64 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~   64 (176)
                      +.+.|++++|++.|....+.        .         .+.+...|..+..+|.+.|++++|+..++...+.. +.+...
T Consensus        21 ~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a   99 (162)
T 3rkv_A           21 LFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKA   99 (162)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHH
Confidence            46789999999999988764        1         12245788999999999999999999999988764 336788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 030489           65 FTILIDAFCKEGRMDDATMMFSKMLEKGP   93 (176)
Q Consensus        65 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~   93 (176)
                      |..+..+|...|++++|...|++..+..+
T Consensus       100 ~~~~g~~~~~~g~~~~A~~~~~~al~l~p  128 (162)
T 3rkv_A          100 LFRRAKARIAAWKLDEAEEDLKLLLRNHP  128 (162)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCG
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999998753

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.55  E-value=7e-07  Score=62.76  Aligned_cols=118  Identities=15%  Similarity=0.099  Sum_probs=83.6

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChh------------------hHHHHHHHHHhcCCHHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSI------------------TFTILIDAFCKEGRMDDATMMFSK   87 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~------------------~~~~ll~~~~~~~~~~~a~~~~~~   87 (176)
                      ....+..+...+.+.|++++|+..|++....  .|+..                  .|..+..+|.+.|++++|...+++
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~  255 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNI  255 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3456778888899999999999999997764  34433                  778888999999999999999999


Q ss_pred             HHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC--------------CChHHHHHHHHHHHH
Q 030489           88 MLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA--------------GRPTEAMQLYDSMLR  148 (176)
Q Consensus        88 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--------------~~~~~a~~~~~~m~~  148 (176)
                      ..+.... +...|..+..+|...|++++|...|++.....  |+..              +..+.+...|.+|..
T Consensus       256 al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~--p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~  327 (338)
T 2if4_A          256 VLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKYA--PDDKAIRRELRALAEQEKALYQKQKEMYKGIFK  327 (338)
T ss_dssp             HHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------------------
T ss_pred             HHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            9988644 88899999999999999999999999876532  2222              445556666666653

>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=98.50  E-value=4.4e-06  Score=63.94  Aligned_cols=160  Identities=9%  Similarity=0.024  Sum_probs=117.5

Q ss_pred             hhCChhHHHHHHHHHhhCCC---------Cc------------cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcCh
Q 030489            4 KECHLDAALKLFGQLTDRGL---------EP------------DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNS   62 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~---------~~------------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~   62 (176)
                      +.|++++|.++|+.+.+...         .|            ...+|...+....+.|..+.|.++|.+..+.-..+..
T Consensus       390 ~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~  469 (679)
T 4e6h_A          390 LNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTP  469 (679)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCT
T ss_pred             HhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCCh
Confidence            57899999999999886410         12            2357888899888999999999999999876111223


Q ss_pred             hhHHHHHHHHHhc-CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC--------
Q 030489           63 ITFTILIDAFCKE-GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA--------  133 (176)
Q Consensus        63 ~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--------  133 (176)
                      ..|......-.+. ++.+.|.++|+...+. ++-+...|...+......|+.+.|..+|++.......+...        
T Consensus       470 ~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~  548 (679)
T 4e6h_A          470 DIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVI  548 (679)
T ss_dssp             HHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            3343322222333 4599999999999887 44577788899998999999999999999987654322222        


Q ss_pred             ------CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhh
Q 030489          134 ------GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNL  166 (176)
Q Consensus       134 ------~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~  166 (176)
                            |+.+.+.++.+++.+.  .|+......+++-|.
T Consensus       549 ~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~ry~  585 (679)
T 4e6h_A          549 FFESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNKYK  585 (679)
T ss_dssp             HHHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHHTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHhc
Confidence                  9999999999999976  566666666665553

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.49  E-value=2.2e-06  Score=50.24  Aligned_cols=81  Identities=14%  Similarity=0.154  Sum_probs=62.9

Q ss_pred             hHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489            9 DAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKM   88 (176)
Q Consensus         9 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~   88 (176)
                      +.|++.|++..+.. +.+...+..+...+...|++++|+..|++..+... .+...+..+..++...|++++|...|++.
T Consensus         2 ~~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            2 QAITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CCHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35777788777764 34678888888888888999999988888877542 35667778888888888888888888887


Q ss_pred             Hhc
Q 030489           89 LEK   91 (176)
Q Consensus        89 ~~~   91 (176)
                      .+.
T Consensus        80 l~~   82 (115)
T 2kat_A           80 LAA   82 (115)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            754

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.49  E-value=5.8e-06  Score=45.96  Aligned_cols=84  Identities=23%  Similarity=0.295  Sum_probs=67.4

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +...+..+...+...|++++|+..|++..+.. +.+...+..+..++.+.|++++|...|++..+..+. +..++..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CHHHHHHHHH
Confidence            46778888889999999999999999887764 236677888889999999999999999999887543 6777777776


Q ss_pred             HHHhcC
Q 030489          106 GYFKSQ  111 (176)
Q Consensus       106 ~~~~~g  111 (176)
                      ++.+.|
T Consensus        86 ~~~~~g   91 (91)
T 1na3_A           86 AKQKQG   91 (91)
T ss_dssp             HHHHHC
T ss_pred             HHHhcC
Confidence            665543

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.46  E-value=8.4e-07  Score=65.25  Aligned_cols=96  Identities=14%  Similarity=0.156  Sum_probs=82.7

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 030489           30 YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK  109 (176)
Q Consensus        30 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  109 (176)
                      +..+...+.+.|++++|++.|++..+.. +.+..++..+..+|.+.|++++|.+.+++..+.... +..+|..+..+|.+
T Consensus         9 ~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~   86 (477)
T 1wao_1            9 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMA   86 (477)
T ss_dssp             SSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            3444556778999999999999988764 236788999999999999999999999999988654 78899999999999


Q ss_pred             cCCHHHHHHHHHHHHHCC
Q 030489          110 SQNMKSAFDVYEEMCENN  127 (176)
Q Consensus       110 ~g~~~~a~~~~~~m~~~~  127 (176)
                      .|++++|.+.+++..+..
T Consensus        87 ~g~~~eA~~~~~~al~~~  104 (477)
T 1wao_1           87 LGKFRAALRDYETVVKVK  104 (477)
T ss_dssp             HTCHHHHHHHHHHHHHHS
T ss_pred             cCCHHHHHHHHHHHHHhC
Confidence            999999999999987753

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.45  E-value=6.1e-05  Score=52.18  Aligned_cols=160  Identities=11%  Similarity=-0.023  Sum_probs=115.3

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCC--ChhHHHHHHHHHHhCCCCcChhhHHHHHHHH----Hhc---CC
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN--RLDEAVQLFEKLTCVQLKPNSITFTILIDAF----CKE---GR   77 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~----~~~---~~   77 (176)
                      ..++|+++++.+...++. +..+|+.--..+...+  ++++++++++.+.....+ +..+|+.--..+    .+.   ++
T Consensus        48 ~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~  125 (306)
T 3dra_A           48 YSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFD  125 (306)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             CCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCC
Confidence            346899999988887533 6778888888888888  899999999998876543 555565433333    444   78


Q ss_pred             HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH--HHHHHHHHHHHCCCCCCCC-----------CC------hHH
Q 030489           78 MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK--SAFDVYEEMCENNISPNIA-----------GR------PTE  138 (176)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--~a~~~~~~m~~~~~~~~~~-----------~~------~~~  138 (176)
                      +++++.+++.+.+...+ +..+|+.-.-.+.+.|.++  +++++++++.+.+......           +.      +++
T Consensus       126 ~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          126 PYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             THHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccccchhhhHHH
Confidence            89999999999988765 8889999888888888888  9999999988765433333           43      788


Q ss_pred             HHHHHHHHHHCCCCCcHHHHHHHHHHhhcccC
Q 030489          139 AMQLYDSMLRNGIMPDGLLLSTLADYNLQSSG  170 (176)
Q Consensus       139 a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  170 (176)
                      +++.++++.... .-|...++-+-..+.+.|+
T Consensus       205 El~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~  235 (306)
T 3dra_A          205 ELNYVKDKIVKC-PQNPSTWNYLLGIHERFDR  235 (306)
T ss_dssp             HHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhC-CCCccHHHHHHHHHHhcCC
Confidence            888888887652 2234455555555555554

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.44  E-value=6e-06  Score=60.39  Aligned_cols=118  Identities=15%  Similarity=0.030  Sum_probs=94.0

Q ss_pred             hhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC--------------hhhHHHHHHHHH
Q 030489            8 LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN--------------SITFTILIDAFC   73 (176)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------~~~~~~ll~~~~   73 (176)
                      +++|.+.|+...+.. +-....|..+...+.+.|++++|+..|++..+......              ...|..+..+|.
T Consensus       250 ~~~A~~~~~~~~~~~-~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~  328 (457)
T 1kt0_A          250 FEKAKESWEMDTKEK-LEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYL  328 (457)
T ss_dssp             EECCCCGGGSCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCcchhhcCHHHH-HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444333221 12456788899999999999999999999887532211              578888999999


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 030489           74 KEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus        74 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  127 (176)
                      +.|++++|+..+++..+.... +...|..+..+|...|++++|+..|++..+..
T Consensus       329 ~~g~~~~A~~~~~~al~~~p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~  381 (457)
T 1kt0_A          329 KLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  381 (457)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            999999999999999988654 88999999999999999999999999988753

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.43  E-value=2.3e-06  Score=49.50  Aligned_cols=95  Identities=14%  Similarity=0.028  Sum_probs=72.4

Q ss_pred             ccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc------HH
Q 030489           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN------VV   98 (176)
Q Consensus        25 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~   98 (176)
                      ++...|..+...+.+.|++++|+..|++..+.. +.+...+..+..++.+.|++++|.+.+++..+.... +      ..
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~   79 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTST-AEHVAIRSK   79 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSS-TTSHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ccHHHHHHH
Confidence            356778888999999999999999999988764 336778888889999999999999999999876533 3      45


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHH
Q 030489           99 TYSCLIDGYFKSQNMKSAFDVYE  121 (176)
Q Consensus        99 ~~~~l~~~~~~~g~~~~a~~~~~  121 (176)
                      .+..+..++...|+++.+...++
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHHHHhHhhhHhHHH
Confidence            55566666666666655544443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.43  E-value=6.5e-06  Score=48.17  Aligned_cols=80  Identities=14%  Similarity=0.120  Sum_probs=68.6

Q ss_pred             hHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           44 DEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        44 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      ++++..|++..+.. +.+...+..+...+...|++++|...|++..+.... +...|..+..+|...|++++|...|++.
T Consensus         2 ~~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            2 QAITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CCHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35777888877654 336788888999999999999999999999988654 7889999999999999999999999987


Q ss_pred             HH
Q 030489          124 CE  125 (176)
Q Consensus       124 ~~  125 (176)
                      ..
T Consensus        80 l~   81 (115)
T 2kat_A           80 LA   81 (115)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.41  E-value=5.6e-06  Score=56.60  Aligned_cols=100  Identities=11%  Similarity=0.012  Sum_probs=88.1

Q ss_pred             ccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHH
Q 030489           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (176)
Q Consensus        25 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (176)
                      .+...+..+...+.+.|++++|+..|++..+... .+...+..+..+|.+.|++++|...+++..+.... +...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            3567888899999999999999999999887642 37788889999999999999999999999988654 788999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHC
Q 030489          105 DGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       105 ~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+|...|++++|...|++....
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999999987653

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.39  E-value=7.4e-05  Score=54.54  Aligned_cols=135  Identities=15%  Similarity=0.110  Sum_probs=90.1

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhC----CChhHHHHHHHHHHhCCCCcChhhHHHHHHH-H--HhcCCHH
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSL----NRLDEAVQLFEKLTCVQLKPNSITFTILIDA-F--CKEGRMD   79 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~--~~~~~~~   79 (176)
                      ++++|++.|+...+.| +++...+..+...|...    +++++|+..|++.. .   -+...+..|-.. +  ...++++
T Consensus       194 ~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~  268 (452)
T 3e4b_A          194 QQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVE  268 (452)
T ss_dssp             HHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHH
T ss_pred             cHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHH
Confidence            7788888888887776 44666556666666554    67888888888776 3   244555555555 3  4578888


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHHCCCCCCC-------------CCChHHHHH
Q 030489           80 DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ-----NMKSAFDVYEEMCENNISPNI-------------AGRPTEAMQ  141 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~a~~~~~~m~~~~~~~~~-------------~~~~~~a~~  141 (176)
                      +|.+.|++..+.|   +...+..|-..|. .|     ++++|...|++.. .|...-.             ..+.++|..
T Consensus       269 ~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~  343 (452)
T 3e4b_A          269 QMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALD  343 (452)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHH
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHH
Confidence            8888888887766   5667777777776 45     8888888887654 2111000             037788888


Q ss_pred             HHHHHHHCCC
Q 030489          142 LYDSMLRNGI  151 (176)
Q Consensus       142 ~~~~m~~~g~  151 (176)
                      +|++..+.|.
T Consensus       344 ~~~~Aa~~g~  353 (452)
T 3e4b_A          344 HLLTAARNGQ  353 (452)
T ss_dssp             HHHHHHTTTC
T ss_pred             HHHHHHhhCh
Confidence            8877776553

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.39  E-value=7.3e-06  Score=58.35  Aligned_cols=99  Identities=12%  Similarity=0.010  Sum_probs=84.0

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhC---------------CCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCV---------------QLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---------------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   91 (176)
                      ...+..+...+.+.|++++|+..|++..+.               --+.+..+|..+..+|.+.|++++|.+.+++..+.
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            345788889999999999999999988761               11224577888889999999999999999999987


Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           92 GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        92 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      ... +...|..+..+|...|++++|+..|++..+.
T Consensus       303 ~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          303 DPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             CTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             Cch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            654 7889999999999999999999999988764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.38  E-value=9e-06  Score=56.33  Aligned_cols=104  Identities=10%  Similarity=0.106  Sum_probs=49.0

Q ss_pred             CChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChh--HHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC------
Q 030489            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLD--EAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR------   77 (176)
Q Consensus         6 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~------   77 (176)
                      +++++++++++.+.+.. +-+..+|+.-.-.+.+.|.++  ++++.++.+.+.... |...|+.-.....+.+.      
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhh
Confidence            34455555555554443 224455554444444445444  555555555544332 44444443333333333      


Q ss_pred             HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC
Q 030489           78 MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN  112 (176)
Q Consensus        78 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  112 (176)
                      ++++++.+++.+...+. |...|+.+-..+.+.|+
T Consensus       202 ~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~  235 (306)
T 3dra_A          202 IDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDR  235 (306)
T ss_dssp             HHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCC
Confidence            44555555555544433 55555555555544444

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.37  E-value=7.1e-06  Score=51.11  Aligned_cols=90  Identities=18%  Similarity=0.108  Sum_probs=73.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCc------cH-----HHHHHHHHHHHhCCChhHHHHHHHHHHhC-----CCCc-Chhh
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEP------DI-----ITYNTIICGYCSLNRLDEAVQLFEKLTCV-----QLKP-NSIT   64 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~------~~-----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~~~-~~~~   64 (176)
                      +.+.|++++|++.|++..+..+..      +.     ..|..+..++.+.|++++|+..+++..+.     .+.| +...
T Consensus        21 l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A  100 (159)
T 2hr2_A           21 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKL  100 (159)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHH
Confidence            457899999999999998764321      22     38999999999999999999999998874     1134 4567


Q ss_pred             H----HHHHHHHHhcCCHHHHHHHHHHHHhc
Q 030489           65 F----TILIDAFCKEGRMDDATMMFSKMLEK   91 (176)
Q Consensus        65 ~----~~ll~~~~~~~~~~~a~~~~~~~~~~   91 (176)
                      |    ...-.++...|++++|+..|++..+.
T Consensus       101 ~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A          101 WISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            7    88889999999999999999998754

>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=98.33  E-value=1.6e-05  Score=60.91  Aligned_cols=50  Identities=6%  Similarity=-0.067  Sum_probs=24.7

Q ss_pred             hCChhHHH-HHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHh
Q 030489            5 ECHLDAAL-KLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTC   55 (176)
Q Consensus         5 ~~~~~~a~-~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   55 (176)
                      .|+.++|. ++|++.... +|.+...|...+....+.|++++|.++|+.+..
T Consensus       356 ~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~  406 (679)
T 4e6h_A          356 KNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCID  406 (679)
T ss_dssp             HSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34444553 555555443 233444444555555555555555555555543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.28  E-value=1.9e-05  Score=57.65  Aligned_cols=132  Identities=10%  Similarity=0.068  Sum_probs=93.8

Q ss_pred             HHHHHHHHHHHHhCC---ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhc----CCHHHHHHHHHHHHhcCCCCcHHH
Q 030489           27 IITYNTIICGYCSLN---RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE----GRMDDATMMFSKMLEKGPKANVVT   99 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~   99 (176)
                      +..+..|...|.+.|   +.++|++.|++....|.. +...+..|...|...    +++++|.+.|++.. .|   +...
T Consensus       176 ~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a  250 (452)
T 3e4b_A          176 DICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPAS  250 (452)
T ss_dssp             TTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHH
T ss_pred             HHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHH
Confidence            338888888888899   899999999998888743 555556666666554    78999999999987 33   5566


Q ss_pred             HHHHHHH-H--HhcCCHHHHHHHHHHHHHCCCCCCCC--------C-----ChHHHHHHHHHHHHCCCCCcHHHHHHHHH
Q 030489          100 YSCLIDG-Y--FKSQNMKSAFDVYEEMCENNISPNIA--------G-----RPTEAMQLYDSMLRNGIMPDGLLLSTLAD  163 (176)
Q Consensus       100 ~~~l~~~-~--~~~g~~~~a~~~~~~m~~~~~~~~~~--------~-----~~~~a~~~~~~m~~~g~~p~~~~~~~l~~  163 (176)
                      +..|-.. |  ...+++++|+..|++..+.|...-..        |     +.++|.++|++.. .|   +......+-.
T Consensus       251 ~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~  326 (452)
T 3e4b_A          251 WVSLAQLLYDFPELGDVEQMMKYLDNGRAADQPRAELLLGKLYYEGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQ  326 (452)
T ss_dssp             HHHHHHHHHHSGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHH
Confidence            6677666 4  46889999999999988766211111        4     8899999988877 32   3444444544


Q ss_pred             Hhhc
Q 030489          164 YNLQ  167 (176)
Q Consensus       164 ~~~~  167 (176)
                      .|..
T Consensus       327 ~y~~  330 (452)
T 3e4b_A          327 IYRR  330 (452)
T ss_dssp             HHHT
T ss_pred             HHHC
Confidence            4443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.23  E-value=4.6e-05  Score=43.83  Aligned_cols=65  Identities=15%  Similarity=0.169  Sum_probs=57.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        61 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +...+..+...+.+.|++++|.+.|++..+..+. +...|..+..+|.+.|++++|+..+++....
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            5667888889999999999999999999988654 7889999999999999999999999998764

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.21  E-value=0.00016  Score=50.93  Aligned_cols=160  Identities=17%  Similarity=0.125  Sum_probs=118.5

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCC-ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhc-C-CHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE-G-RMDDA   81 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-~-~~~~a   81 (176)
                      .+..++|+++++.+...++. +..+|+.--..+...| .+++++++++.+.....+ +..+|+.---.+.+. + +++++
T Consensus        67 ~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~E  144 (349)
T 3q7a_A           67 EEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSE  144 (349)
T ss_dssp             TCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHH
T ss_pred             CCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHH
Confidence            34557899999999987633 7888888888888888 599999999999987654 777787666666555 6 88999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH--------HHHHHHHHHHHCCCCCCCC-----------CC-------
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMK--------SAFDVYEEMCENNISPNIA-----------GR-------  135 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--------~a~~~~~~m~~~~~~~~~~-----------~~-------  135 (176)
                      +++++.+.+.... +..+|+.-...+.+.|.++        ++++.++++.+.+......           +.       
T Consensus       145 L~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~N~SAW~~R~~lL~~l~~~~~~~~~  223 (349)
T 3q7a_A          145 IEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGRNNSAWGWRWYLRVSRPGAETSSRS  223 (349)
T ss_dssp             HHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTTSTTCCCCHHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccccccchHH
Confidence            9999999988765 8899998777777777666        8999999988765433333           33       


Q ss_pred             hHHHHHHHHHHHHCCCCCcHH-HHHHHHHHhhccc
Q 030489          136 PTEAMQLYDSMLRNGIMPDGL-LLSTLADYNLQSS  169 (176)
Q Consensus       136 ~~~a~~~~~~m~~~g~~p~~~-~~~~l~~~~~~~g  169 (176)
                      ++++++.+++....  .|+.. .++-+-..+.+.|
T Consensus       224 ~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~  256 (349)
T 3q7a_A          224 LQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFS  256 (349)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcC
Confidence            68899999888865  45544 4444333343333

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.21  E-value=2.3e-05  Score=44.80  Aligned_cols=64  Identities=22%  Similarity=0.201  Sum_probs=40.0

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   90 (176)
                      +...+..+..+|.+.|++++|+..|++..+.... +...|..+..+|...|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5566666666666666666666666666654322 445566666666666666666666666553

>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=98.20  E-value=9e-06  Score=50.57  Aligned_cols=88  Identities=14%  Similarity=0.079  Sum_probs=63.4

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChh----------HHHHHHHHHHhCCCCcChhhHHHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLD----------EAVQLFEKLTCVQLKPNSITFTILIDAF   72 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~----------~a~~~~~~m~~~~~~~~~~~~~~ll~~~   72 (176)
                      .|.+++++|.+.++...+.. +.+...|+.+..++...++++          +|+..|++..+.... +..+|..+-.+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHH
Confidence            35677889999998888775 347888888888888877654          777777777765432 556677777777


Q ss_pred             HhcC-----------CHHHHHHHHHHHHhcC
Q 030489           73 CKEG-----------RMDDATMMFSKMLEKG   92 (176)
Q Consensus        73 ~~~~-----------~~~~a~~~~~~~~~~~   92 (176)
                      .+.|           ++++|.+.|++..+.+
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHhC
Confidence            6653           6777777777777654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.17  E-value=2.3e-05  Score=44.80  Aligned_cols=65  Identities=25%  Similarity=0.290  Sum_probs=57.4

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        61 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +...+..+..+|.+.|++++|...|++..+..+. +..+|..+..+|...|++++|...|++....
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            6677888899999999999999999999988655 7788999999999999999999999987653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.15  E-value=2.1e-05  Score=58.06  Aligned_cols=112  Identities=10%  Similarity=0.002  Sum_probs=80.8

Q ss_pred             HHHhCCChhHHHHHHHHHHhC---CCCc----ChhhHHHHHHHHHhcCCHHHHHHHHHHHHh-----cCCC-C-cHHHHH
Q 030489           36 GYCSLNRLDEAVQLFEKLTCV---QLKP----NSITFTILIDAFCKEGRMDDATMMFSKMLE-----KGPK-A-NVVTYS  101 (176)
Q Consensus        36 ~~~~~~~~~~a~~~~~~m~~~---~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~-~-~~~~~~  101 (176)
                      .+...|++++|+.++++....   -+.|    ...+++.|...|...|++++|..++++..+     .|.. | ...+++
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            356899999999999876642   1112    346788999999999999999999988764     2322 2 345689


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH---CCCCCCCC----------------CChHHHHHHHHHHH
Q 030489          102 CLIDGYFKSQNMKSAFDVYEEMCE---NNISPNIA----------------GRPTEAMQLYDSML  147 (176)
Q Consensus       102 ~l~~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~----------------~~~~~a~~~~~~m~  147 (176)
                      .|...|...|++++|..++++...   .-.-++..                +.+++|..+++++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~  462 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMR  462 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999987643   11222322                55666666666665

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.13  E-value=9.8e-05  Score=53.05  Aligned_cols=146  Identities=12%  Similarity=0.009  Sum_probs=102.4

Q ss_pred             chhhCChhHHHHHHHHHhhCC-CCccH----HHHHHHHHHHHhCCChhHHHHHHHHHHh----CCCCc-ChhhHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRG-LEPDI----ITYNTIICGYCSLNRLDEAVQLFEKLTC----VQLKP-NSITFTILIDA   71 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~-~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~~~~~-~~~~~~~ll~~   71 (176)
                      |.+.|++++|.+++..+.+.- ..++.    .+.+.+-..+...|++++++.++.....    .+..+ -..++..+...
T Consensus        65 y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~  144 (434)
T 4b4t_Q           65 YVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATL  144 (434)
T ss_dssp             HHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            567899999999998876531 11121    2333444445567899999999987653    22222 24567788899


Q ss_pred             HHhcCCHHHHHHHHHHHHhc----C-CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCC-CCCC----------
Q 030489           72 FCKEGRMDDATMMFSKMLEK----G-PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN--NIS-PNIA----------  133 (176)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~--~~~-~~~~----------  133 (176)
                      +...|++++|..+++++...    + -+....++..++..|...|++++|..++++....  ... |...          
T Consensus       145 ~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~  224 (434)
T 4b4t_Q          145 HYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGI  224 (434)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             HHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHH
Confidence            99999999999999987642    1 1223457888999999999999999999887532  111 1111          


Q ss_pred             -----CChHHHHHHHHHHH
Q 030489          134 -----GRPTEAMQLYDSML  147 (176)
Q Consensus       134 -----~~~~~a~~~~~~m~  147 (176)
                           +++++|...|.+..
T Consensus       225 ~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          225 LHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHH
Confidence                 88899988887765

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.12  E-value=0.00018  Score=54.08  Aligned_cols=159  Identities=10%  Similarity=0.002  Sum_probs=119.2

Q ss_pred             hhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCC----------hhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC-
Q 030489            8 LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNR----------LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG-   76 (176)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-   76 (176)
                      .++|++.++.+.+.++. +..+|+.--.++...|+          ++++++.++.+.+...+ +..+|+.-.-.+.+.+ 
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            46789999999887533 67788877666666666          89999999999987654 7788887777778888 


Q ss_pred             -CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCCCCC---------------------
Q 030489           77 -RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ-NMKSAFDVYEEMCENNISPNIA---------------------  133 (176)
Q Consensus        77 -~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~---------------------  133 (176)
                       +++++.+.++++.+.+.. +..+|+.-...+.+.| .++++++.++++.+.+..-...                     
T Consensus       123 ~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          123 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             ccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccc
Confidence             779999999999998766 9999999988888989 8999999988876543321111                     


Q ss_pred             ----CChHHHHHHHHHHHHCCCCCcH-HHHHHHHHHhhcccCc
Q 030489          134 ----GRPTEAMQLYDSMLRNGIMPDG-LLLSTLADYNLQSSGS  171 (176)
Q Consensus       134 ----~~~~~a~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~  171 (176)
                          +.++++++.+++....  .|+. ..|.-+-..+.+.++.
T Consensus       202 ~~~~~~~~eel~~~~~ai~~--~P~~~saW~y~~~ll~~~~~~  242 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGRAEPH  242 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHH--CSSCSHHHHHHHHHHSCCCCC
T ss_pred             cccHHHHHHHHHHHHHHHhh--CCCCccHHHHHHHHHhcCCCc
Confidence                3368888888888864  4554 4555555555555543

>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=98.08  E-value=2.3e-05  Score=56.93  Aligned_cols=61  Identities=8%  Similarity=-0.061  Sum_probs=29.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHh-----cCC-CC-cHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           63 ITFTILIDAFCKEGRMDDATMMFSKMLE-----KGP-KA-NVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        63 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~-~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      .+++.|..+|...|++++|..++++..+     .|. .| ...+++.|...|...|++++|..++++.
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            3445555555555555555555554432     111 11 1223555555555555555555555544

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.99  E-value=4.3e-05  Score=55.49  Aligned_cols=26  Identities=15%  Similarity=0.106  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHH
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKL   53 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m   53 (176)
                      .+++.+..+|...|++++|+.++++.
T Consensus       330 ~~~~~L~~~y~~~g~~~eA~~~~~~~  355 (429)
T 3qwp_A          330 KVLDCAMDACINLGLLEEALFYGTRT  355 (429)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHH
Confidence            34444444454555555554444443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.98  E-value=9.1e-05  Score=40.89  Aligned_cols=72  Identities=17%  Similarity=0.191  Sum_probs=57.0

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhc
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE   75 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   75 (176)
                      +.+.|++++|.+.|++..+.. +.+..++..+..++.+.|++++|+..+++..+... .+...+..+..++.+.
T Consensus        19 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~l~~~~~~~   90 (91)
T 1na3_A           19 YYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAKQNLGNAKQKQ   90 (91)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHhc
Confidence            457899999999999998764 34788899999999999999999999999887642 2556666666655443

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.91  E-value=3.1e-05  Score=48.15  Aligned_cols=87  Identities=14%  Similarity=0.125  Sum_probs=68.7

Q ss_pred             HhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCH----------HHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 030489           38 CSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM----------DDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        38 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (176)
                      .+.+.+++|++.++...+... -+...|+.+-.++...+++          ++|+..|++.++.++. +..+|..+-.+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P-~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHH
Confidence            455678999999999887753 3788888888888877664          5999999999998766 888999999999


Q ss_pred             HhcC-----------CHHHHHHHHHHHHHC
Q 030489          108 FKSQ-----------NMKSAFDVYEEMCEN  126 (176)
Q Consensus       108 ~~~g-----------~~~~a~~~~~~m~~~  126 (176)
                      ...|           ++++|++.|++..+.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            8875           666777766666553

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.89  E-value=4e-05  Score=43.35  Aligned_cols=59  Identities=17%  Similarity=0.247  Sum_probs=38.2

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhCCCCcChh-hHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 030489           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDDATMMFSKMLEKGP   93 (176)
Q Consensus        34 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~   93 (176)
                      ...+.+.|++++|+..|++..+... .+.. .+..+..++...|++++|.+.|++..+...
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p   66 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTEP-VGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNP   66 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCS-STHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            4455667777777777777665432 2445 666666777777777777777777766643

>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=97.87  E-value=0.00097  Score=46.68  Aligned_cols=143  Identities=6%  Similarity=0.007  Sum_probs=108.5

Q ss_pred             hhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCC--ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC-HHHHHHH
Q 030489            8 LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN--RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR-MDDATMM   84 (176)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~   84 (176)
                      +++++.+++.+....++ +..+|+.-...+.+.+  .+++++.+++.+.+.... |...|+.-.-.+...|. ++++++.
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            67889999998887543 8889988877787777  489999999999987644 77788776666677787 5899999


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhc--------------CCHHHHHHHHHHHHHCCCCCCCC-----------------
Q 030489           85 FSKMLEKGPKANVVTYSCLIDGYFKS--------------QNMKSAFDVYEEMCENNISPNIA-----------------  133 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~a~~~~~~m~~~~~~~~~~-----------------  133 (176)
                      ++.+++.++. |..+|+.....+.+.              +.++++++.+.+.....+...+.                 
T Consensus       168 ~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          168 TDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHHHHCSC-CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHHHHCCC-CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCcccc
Confidence            9999988766 889999888777765              45788888888876543222221                 


Q ss_pred             -----CChHHHHHHHHHHHHCCCCCcH
Q 030489          134 -----GRPTEAMQLYDSMLRNGIMPDG  155 (176)
Q Consensus       134 -----~~~~~a~~~~~~m~~~g~~p~~  155 (176)
                           +..+++++.++++.+.  .|+.
T Consensus       247 ~~~~~~~l~~el~~~~elle~--~pd~  271 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQEL--EPEN  271 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             chHHHHHHHHHHHHHHHHHhh--Cccc
Confidence                 2467888888888864  5664

>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=97.83  E-value=0.0019  Score=45.28  Aligned_cols=137  Identities=9%  Similarity=0.063  Sum_probs=106.0

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCC-hhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhc----------
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNR-LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE----------   75 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~----------   75 (176)
                      .+++++++++.+.+.. +.|.++|+.-.-.+...|. ++++++.+..+.+..+. |...|+.....+.+.          
T Consensus       125 ~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~  202 (331)
T 3dss_A          125 NWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQG  202 (331)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC------
T ss_pred             cHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhcccccccc
Confidence            4789999999999876 4499999988888888888 59999999999987654 888887766655544          


Q ss_pred             ----CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHHCCCCCCCC-------
Q 030489           76 ----GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS-----------QNMKSAFDVYEEMCENNISPNIA-------  133 (176)
Q Consensus        76 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~m~~~~~~~~~~-------  133 (176)
                          +.++++.+.+.+.....+. |..+|+.+-..+.+.           +.++++++.++++.+..  |+..       
T Consensus       203 ~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~--pd~~w~l~~~~  279 (331)
T 3dss_A          203 RLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE--PENKWCLLTII  279 (331)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC--cccchHHHHHH
Confidence                4578899999999988765 999998776666665           45789999999887643  4433       


Q ss_pred             ---------CChHHHHHHHHHHHH
Q 030489          134 ---------GRPTEAMQLYDSMLR  148 (176)
Q Consensus       134 ---------~~~~~a~~~~~~m~~  148 (176)
                               +..+++...+.++.+
T Consensus       280 ~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          280 LLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             HHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             HHHHhhcccccHHHHHHHHHHHHH
Confidence                     555666667777764

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.81  E-value=0.00019  Score=52.13  Aligned_cols=86  Identities=6%  Similarity=-0.062  Sum_probs=57.7

Q ss_pred             hCChhHHHHHHHHHhhC-----CC--CccHHHHHHHHHHHHhCCChhHHHHHHHHHHh-----CCC-Cc-ChhhHHHHHH
Q 030489            5 ECHLDAALKLFGQLTDR-----GL--EPDIITYNTIICGYCSLNRLDEAVQLFEKLTC-----VQL-KP-NSITFTILID   70 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~-----~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-----~~~-~~-~~~~~~~ll~   70 (176)
                      .|++++|+.++++..+.     |.  +....+++.|..+|...|++++|+.++++...     .|. .| ...+++.|..
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            46778888888766542     21  11346777888888888888888888877653     121 12 2345777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHh
Q 030489           71 AFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~   90 (176)
                      .|...|++++|+.++++..+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            88888888888888877665

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.81  E-value=0.00061  Score=49.47  Aligned_cols=93  Identities=10%  Similarity=0.036  Sum_probs=71.3

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhCC---CCc----ChhhHHHHHHHHHhcCCHHHHHHHHHHHHh-----cCC-CC-cH
Q 030489           32 TIICGYCSLNRLDEAVQLFEKLTCVQ---LKP----NSITFTILIDAFCKEGRMDDATMMFSKMLE-----KGP-KA-NV   97 (176)
Q Consensus        32 ~ll~~~~~~~~~~~a~~~~~~m~~~~---~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~-~~-~~   97 (176)
                      ..+..+.+.|++++|+.++++.....   +.|    ...+++.|...|...|++++|+.++++...     .|. .| ..
T Consensus       292 ~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a  371 (429)
T 3qwp_A          292 KKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRG  371 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHH
Confidence            34555678899999999999887531   122    246788899999999999999999998764     222 22 33


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           98 VTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        98 ~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      .+++.|...|...|++++|..++++..
T Consensus       372 ~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          372 VQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            568899999999999999999997653

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.75  E-value=0.00078  Score=50.69  Aligned_cols=133  Identities=8%  Similarity=0.019  Sum_probs=107.8

Q ss_pred             hhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCC--ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC-CHHHHHHH
Q 030489            8 LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN--RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG-RMDDATMM   84 (176)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~   84 (176)
                      ++++++.++.+.+..++ +..+|+.-..++.+.+  +++++++.++++.+.... +...|+.-.-.+.+.| .++++.+.
T Consensus        89 ~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~  166 (567)
T 1dce_A           89 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAF  166 (567)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHH
Confidence            89999999999987644 8999999888899999  779999999999988654 7888888777778888 89999999


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhc--------------CCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHHHHHHC
Q 030489           85 FSKMLEKGPKANVVTYSCLIDGYFKS--------------QNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRN  149 (176)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~~m~~~  149 (176)
                      ++++++..+. +..+|+.....+.+.              +.++++++.+++.....  |+.    +.|+...+-+...
T Consensus       167 ~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~--P~~----~saW~y~~~ll~~  238 (567)
T 1dce_A          167 TDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD--PND----QSAWFYHRWLLGR  238 (567)
T ss_dssp             HHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHC--SSC----SHHHHHHHHHHSC
T ss_pred             HHHHHHHCCC-CccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhC--CCC----ccHHHHHHHHHhc
Confidence            9999998776 999999988888774              55789999998877643  332    3556666666543

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.74  E-value=0.0018  Score=39.17  Aligned_cols=85  Identities=13%  Similarity=0.029  Sum_probs=72.8

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHh----CCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh----
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----   74 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----   74 (176)
                      .+.+.+++|.+.|++..+.|   +...+..|-..|..    .+++++|+++|++..+.|   +...+..|-..|..    
T Consensus        36 ~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~  109 (138)
T 1klx_A           36 NSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGV  109 (138)
T ss_dssp             CTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSS
T ss_pred             HcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCC
Confidence            34567788999999998875   67888888888988    899999999999998875   56778888888888    


Q ss_pred             cCCHHHHHHHHHHHHhcCC
Q 030489           75 EGRMDDATMMFSKMLEKGP   93 (176)
Q Consensus        75 ~~~~~~a~~~~~~~~~~~~   93 (176)
                      .++.++|.+.|++..+.|.
T Consensus       110 ~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A          110 VKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             CCCHHHHHHHHHHHHHTTC
T ss_pred             CcCHHHHHHHHHHHHHCCC
Confidence            8999999999999998874

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.71  E-value=0.0022  Score=49.77  Aligned_cols=131  Identities=11%  Similarity=0.093  Sum_probs=76.4

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      +.|+++.|+++.+.+      .+...|..+...+.+.++++.|++.|..+..         |..+...+...|+.+...+
T Consensus       664 ~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~  728 (814)
T 3mkq_A          664 KVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVT  728 (814)
T ss_dssp             HHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHH
T ss_pred             hcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHH
Confidence            345555555554322      2567777777777777777777777776542         4455555555666666555


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHHHHHHCCCCCcH----HHHH
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDSMLRNGIMPDG----LLLS  159 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~  159 (176)
                      +-+.....|      -++....+|.+.|++++|.+++.++          +++++|..+-+..     .|..    ....
T Consensus       729 ~~~~a~~~~------~~~~A~~~~~~~g~~~~a~~~~~~~----------~~~~~A~~lA~~~-----~~~~~~i~~~~~  787 (814)
T 3mkq_A          729 LAKDAETTG------KFNLAFNAYWIAGDIQGAKDLLIKS----------QRFSEAAFLGSTY-----GLGDNEVNDIVT  787 (814)
T ss_dssp             HHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT----------TCHHHHHHHHHHT-----TCCHHHHHHHHH
T ss_pred             HHHHHHHcC------chHHHHHHHHHcCCHHHHHHHHHHc----------CChHHHHHHHHHh-----CCChHHHHHHHH
Confidence            555544433      2234445566677888887777765          3456666655542     3333    3444


Q ss_pred             HHHHHhhcccC
Q 030489          160 TLADYNLQSSG  170 (176)
Q Consensus       160 ~l~~~~~~~g~  170 (176)
                      .....+...|+
T Consensus       788 ~~~~~L~~~~~  798 (814)
T 3mkq_A          788 KWKENLILNGK  798 (814)
T ss_dssp             HHHHHHHTTTC
T ss_pred             HHHHHHHhccc
Confidence            44445555554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.71  E-value=0.00095  Score=37.60  Aligned_cols=65  Identities=14%  Similarity=0.176  Sum_probs=32.3

Q ss_pred             cHHHHHHHHHHHHhCCC---hhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 030489           26 DIITYNTIICGYCSLNR---LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~---~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   91 (176)
                      +...+..+..++...++   .++|..++++..+.... ++.....+...+.+.|++++|+..|+.+.+.
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            44455555555443333   45555555555544321 3444444445555555555555555555544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.55  E-value=0.00092  Score=37.50  Aligned_cols=78  Identities=17%  Similarity=0.285  Sum_probs=59.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCcHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---CChHHHHHHH
Q 030489           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVV-TYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA---GRPTEAMQLY  143 (176)
Q Consensus        68 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---~~~~~a~~~~  143 (176)
                      ....+.+.|++++|...|++..+.... +.. .|..+..+|...|++++|...|++....+......   +.+.+++..+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~a~~~~   84 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQARKMVMDILNFY   84 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH
Confidence            456778899999999999999988654 677 89999999999999999999999987753222111   4445555555


Q ss_pred             HHH
Q 030489          144 DSM  146 (176)
Q Consensus       144 ~~m  146 (176)
                      ++.
T Consensus        85 ~~~   87 (99)
T 2kc7_A           85 NKD   87 (99)
T ss_dssp             CCT
T ss_pred             HHH
Confidence            443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.54  E-value=0.0029  Score=36.23  Aligned_cols=70  Identities=14%  Similarity=0.051  Sum_probs=47.0

Q ss_pred             ccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCC------CCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 030489           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ------LKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK   94 (176)
Q Consensus        25 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~   94 (176)
                      .+..-+..|...+.+.+++..|+..|+...+.-      -.+....+..|..++.+.|+++.|...+++..+..+.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~   78 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE   78 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC
Confidence            355566677777778888888888777665421      1234556667777777777777777777777765433

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.50  E-value=0.0023  Score=35.97  Aligned_cols=70  Identities=14%  Similarity=0.229  Sum_probs=57.0

Q ss_pred             CcChhhHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 030489           59 KPNSITFTILIDAFCKEGR---MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS  129 (176)
Q Consensus        59 ~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  129 (176)
                      +.|...+..+..++...++   .++|..++++..+.++. +..+...+...+.+.|++++|+..|+.+.+....
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            3466777777777754444   68999999999988765 8889999999999999999999999999876544

>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=97.50  E-value=0.0053  Score=43.28  Aligned_cols=119  Identities=9%  Similarity=0.033  Sum_probs=94.2

Q ss_pred             hC-ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhC-C-ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHH--
Q 030489            5 EC-HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSL-N-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMD--   79 (176)
Q Consensus         5 ~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~--   79 (176)
                      .| .+++++++++.+....++ +..+|+.--..+.+. + ++++++++++.+.+...+ |...|+--.-.+.+.+.++  
T Consensus       101 l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~  178 (349)
T 3q7a_A          101 LNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRI  178 (349)
T ss_dssp             TTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCC
T ss_pred             hhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccccc
Confidence            35 589999999999988644 888998877777776 6 899999999999987544 7777765544444444444  


Q ss_pred             ------HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC-------HHHHHHHHHHHHHC
Q 030489           80 ------DATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN-------MKSAFDVYEEMCEN  126 (176)
Q Consensus        80 ------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-------~~~a~~~~~~m~~~  126 (176)
                            ++++.++++++.++. |...|+.....+.+.+.       ++++++.+++....
T Consensus       179 ~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~  237 (349)
T 3q7a_A          179 SEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHL  237 (349)
T ss_dssp             CHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHh
Confidence                  899999999998766 99999999998888876       68888888877654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.47  E-value=0.0016  Score=40.14  Aligned_cols=79  Identities=10%  Similarity=0.112  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC---CHHHHHHHHHHHHhcCCCC--cHHHHHHHHHHHHhcCCHHHHHHH
Q 030489           45 EAVQLFEKLTCVQLKPNSITFTILIDAFCKEG---RMDDATMMFSKMLEKGPKA--NVVTYSCLIDGYFKSQNMKSAFDV  119 (176)
Q Consensus        45 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~  119 (176)
                      .+.+-|.+....+. ++..+...+.-++++++   +.++++.+|++..+.+ .|  ....+-.|.-+|.+.|++++|.+.
T Consensus        16 ~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y   93 (152)
T 1pc2_A           16 KFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKY   93 (152)
T ss_dssp             HHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHH
Confidence            33444444444333 45555555555555555   4446666666666553 12  344444555555666666666666


Q ss_pred             HHHHHH
Q 030489          120 YEEMCE  125 (176)
Q Consensus       120 ~~~m~~  125 (176)
                      ++.+.+
T Consensus        94 ~~~lL~   99 (152)
T 1pc2_A           94 VRGLLQ   99 (152)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            666654

>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=97.41  E-value=0.0067  Score=41.53  Aligned_cols=120  Identities=13%  Similarity=0.099  Sum_probs=81.8

Q ss_pred             cHHHHHHHHHH-HHhC--CC------hhHHHHHHHHHHhCCCCcC---hhhHHHHHHHHHhc-----CCHHHHHHHHHHH
Q 030489           26 DIITYNTIICG-YCSL--NR------LDEAVQLFEKLTCVQLKPN---SITFTILIDAFCKE-----GRMDDATMMFSKM   88 (176)
Q Consensus        26 ~~~~~~~ll~~-~~~~--~~------~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~-----~~~~~a~~~~~~~   88 (176)
                      ....|..++.+ +...  |.      ...|...+++..+.  .|+   ...|..+...|.+.     |+.++|.+.|++.
T Consensus       153 e~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferA  230 (301)
T 3u64_A          153 GTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHL  230 (301)
T ss_dssp             HHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHH
Confidence            34556655554 3332  33      34566666666554  444   55777888888884     8999999999999


Q ss_pred             HhcCCCCcHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHCCCC--CCCC----CChHHHHHHHHHHH
Q 030489           89 LEKGPKANVVTYSCLIDGYFKS-QNMKSAFDVYEEMCENNIS--PNIA----GRPTEAMQLYDSML  147 (176)
Q Consensus        89 ~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~~~~--~~~~----~~~~~a~~~~~~m~  147 (176)
                      .+.+..-+..++....+.++.. |+.+.+.+.+++.......  |+..    +.-.+|..++.++.
T Consensus       231 L~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~~q~eA~~LL~~~~  296 (301)
T 3u64_A          231 TRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVILSQKRARWLKAHVQ  296 (301)
T ss_dssp             HHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHHHHHHHHHHHHTHH
T ss_pred             HHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHHHHHHHHHHHHHhH
Confidence            8876544578888888888884 8899999999998887666  4433    55566666665543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.36  E-value=0.0049  Score=37.98  Aligned_cols=86  Identities=14%  Similarity=0.019  Sum_probs=68.8

Q ss_pred             CChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCC---ChhHHHHHHHHHHhCCCCc--ChhhHHHHHHHHHhcCCHHH
Q 030489            6 CHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN---RLDEAVQLFEKLTCVQLKP--NSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         6 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~~~~~~   80 (176)
                      .....+.+-|.+..+.|. ++..+...+..++++.+   +.++++.+++...+.. .|  ....+..|.-+|.+.|++++
T Consensus        12 ~~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHH
Confidence            445667777877777664 68888888999999988   6679999999988864 24  34556667788899999999


Q ss_pred             HHHHHHHHHhcCC
Q 030489           81 ATMMFSKMLEKGP   93 (176)
Q Consensus        81 a~~~~~~~~~~~~   93 (176)
                      |.+.++.+.+..+
T Consensus        90 A~~y~~~lL~ieP  102 (152)
T 1pc2_A           90 ALKYVRGLLQTEP  102 (152)
T ss_dssp             HHHHHHHHHHHCT
T ss_pred             HHHHHHHHHhcCC
Confidence            9999999998754

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.34  E-value=0.0041  Score=35.57  Aligned_cols=67  Identities=10%  Similarity=0.060  Sum_probs=56.5

Q ss_pred             cChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           60 PNSITFTILIDAFCKEGRMDDATMMFSKMLEKG------PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        60 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .+..-+..|...+.+.++++.|...|+...+.-      ..+...++..+..+|.+.|+++.|...+++....
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            456667788999999999999999999877531      2346788999999999999999999999998764

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.33  E-value=0.0088  Score=42.42  Aligned_cols=61  Identities=11%  Similarity=0.059  Sum_probs=31.7

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHHHHCCCCCcHHHHHH
Q 030489           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSMLRNGIMPDGLLLST  160 (176)
Q Consensus        96 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m~~~g~~p~~~~~~~  160 (176)
                      +..+|..+...+...|++++|...+++....+  |+..            |+.++|.+.+++....  .|...||..
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~~  348 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLYW  348 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHHH
Confidence            45555555544445556666666666555543  2211            5666666666555543  455555443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.28  E-value=0.013  Score=37.08  Aligned_cols=120  Identities=18%  Similarity=0.220  Sum_probs=85.6

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      .+.|+++.|.++.+.+      .+...|..|.......|+++-|++.|.....         |..+.-.|...|+.++..
T Consensus        16 L~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHH
T ss_pred             HhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHH
Confidence            4679999999998776      2788999999999999999999999987552         666777777788888776


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------CChHHHHHHHHHH
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------GRPTEAMQLYDSM  146 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------~~~~~a~~~~~~m  146 (176)
                      ++-+.....|      -++.....+...|+++++.+++.+.   |..|...      |..+.|.++.+.+
T Consensus        81 kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~---~r~~eA~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           81 KMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG---GSLPLAYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT---TCHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC---CChHHHHHHHHHcCcHHHHHHHHHHh
Confidence            6655554443      2455556666778888888887553   2111111      5566666666655

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.25  E-value=0.021  Score=42.26  Aligned_cols=113  Identities=14%  Similarity=0.093  Sum_probs=64.9

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHH--HHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 030489           30 YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI--LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        30 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~--ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (176)
                      |...+....+.+..+.|..+|... +.. ..+...|..  .+... ..++.+.|..+|+...+.-.. +...|...++..
T Consensus       289 w~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~-~~~d~~~ar~ife~al~~~~~-~~~~~~~yid~e  364 (493)
T 2uy1_A          289 RINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYY-ATGSRATPYNIFSSGLLKHPD-STLLKEEFFLFL  364 (493)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHH-HHCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHH-HCCChHHHHHHHHHHHHHCCC-CHHHHHHHHHHH
Confidence            334444444566677788888877 221 123333332  22221 123688888888887765322 445566677777


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCCC--------CChHHHHHHHHHHH
Q 030489          108 FKSQNMKSAFDVYEEMCENNISPNIA--------GRPTEAMQLYDSML  147 (176)
Q Consensus       108 ~~~g~~~~a~~~~~~m~~~~~~~~~~--------~~~~~a~~~~~~m~  147 (176)
                      .+.|+.+.|..+|+..... ......        |+.+.+..++++..
T Consensus       365 ~~~~~~~~aR~l~er~~k~-~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          365 LRIGDEENARALFKRLEKT-SRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHHTCHHHHHHHHHHSCCB-HHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH-HHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            7788888888888875210 000000        77777777776665

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.17  E-value=0.018  Score=42.54  Aligned_cols=114  Identities=11%  Similarity=0.078  Sum_probs=83.7

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHh-CCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS-LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      +.+..+.|..+|+.. +. .+.+...|......-.. .++.+.|..+|+...+.. +-++..+...++...+.|+.+.|.
T Consensus       298 r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR  374 (493)
T 2uy1_A          298 KKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENAR  374 (493)
T ss_dssp             HHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            467789999999998 32 22355555533322222 336999999999988753 223445566677778899999999


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      .+|+...     .....|...+..-...|+.+.+.+++++..+
T Consensus       375 ~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          375 ALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999972     2678899999888889999999999988753

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=97.08  E-value=0.0089  Score=35.55  Aligned_cols=85  Identities=14%  Similarity=0.135  Sum_probs=49.4

Q ss_pred             CChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH---HHHHHHHHHhcCCC-CcHHHHHHHHHHHHhcCCHHHH
Q 030489           41 NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD---ATMMFSKMLEKGPK-ANVVTYSCLIDGYFKSQNMKSA  116 (176)
Q Consensus        41 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a  116 (176)
                      .....+.+-|......|. |+..+-..+.-+++++.....   ++.+++++.+.+.+ -.....-.|.-++.+.|++++|
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            334445555554444343 455555556666666665544   67777776665411 1333444555677777777777


Q ss_pred             HHHHHHHHHC
Q 030489          117 FDVYEEMCEN  126 (176)
Q Consensus       117 ~~~~~~m~~~  126 (176)
                      .+.++.+.+.
T Consensus        94 ~~~~~~lL~~  103 (126)
T 1nzn_A           94 LKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            7777777653

>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=97.03  E-value=0.013  Score=40.22  Aligned_cols=95  Identities=18%  Similarity=0.204  Sum_probs=74.1

Q ss_pred             ChhHHHHHHHHHhhCCCCcc---HHHHHHHHHHHHhC-----CChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhc-CC
Q 030489            7 HLDAALKLFGQLTDRGLEPD---IITYNTIICGYCSL-----NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE-GR   77 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-~~   77 (176)
                      ....|..++++..+.  .|+   ...|..+...|.+.     |+.++|.+.|++..+.+..-+..++......++.. |+
T Consensus       178 ~l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          178 TVHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             hHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            456788888888876  444   67899999999995     99999999999999864332477777788888885 99


Q ss_pred             HHHHHHHHHHHHhcCCC--CcHHHHHHH
Q 030489           78 MDDATMMFSKMLEKGPK--ANVVTYSCL  103 (176)
Q Consensus        78 ~~~a~~~~~~~~~~~~~--~~~~~~~~l  103 (176)
                      .+.+.+.+++..+....  |+....|.+
T Consensus       256 ~~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          256 RAGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             HHHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            99999999999987665  554444433

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.71  E-value=0.018  Score=44.80  Aligned_cols=116  Identities=14%  Similarity=0.128  Sum_probs=76.8

Q ss_pred             hhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCC-ChhHHHHHHHHHHhC------CCCc-Ch----------hhHHHHH
Q 030489            8 LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCV------QLKP-NS----------ITFTILI   69 (176)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~------~~~~-~~----------~~~~~ll   69 (176)
                      ++.|.++|+.+.+..+..+......++..+.+.+ +--+|++++.+..+.      ...+ +.          ...+.-.
T Consensus       265 ~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~LL~~Qa  344 (754)
T 4gns_B          265 VDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLMNCMSDLLNIQT  344 (754)
T ss_dssp             HHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccccCcchHHHHHHH
Confidence            5789999999988732222222233444443333 234566666554321      1111 11          1222234


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           70 DAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        70 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      +.+...|+++-|.++-++.....+. +-.+|..|..+|.+.|+|+.|+-.+..+.
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            5577899999999999999988543 88999999999999999999999998873

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.68  E-value=0.016  Score=41.12  Aligned_cols=68  Identities=16%  Similarity=0.116  Sum_probs=52.0

Q ss_pred             CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 030489           59 KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        59 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  128 (176)
                      +.+..+|..+...+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.+++....+.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P  341 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRP  341 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            4566777777666677788888888888888875  5777777777888888888888888887765433

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.66  E-value=0.044  Score=33.17  Aligned_cols=67  Identities=10%  Similarity=0.177  Sum_probs=37.9

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 030489           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        61 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  128 (176)
                      +...+...++.....|.-++-.+++.++... .+|+....-.+..+|.+.|+..++.+++.+..+.|+
T Consensus        90 ~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           90 LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            3444555556666666666666666664332 344555555666666666666666666666655554

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.62  E-value=0.051  Score=33.40  Aligned_cols=104  Identities=11%  Similarity=0.068  Sum_probs=73.6

Q ss_pred             CccHHHHHHHHHHHHhCCCh------hHHHHHHHHHHhCCCCcChhh----HHHHHH---HHHhcCCHHHHHHHHHHHHh
Q 030489           24 EPDIITYNTIICGYCSLNRL------DEAVQLFEKLTCVQLKPNSIT----FTILID---AFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~------~~a~~~~~~m~~~~~~~~~~~----~~~ll~---~~~~~~~~~~a~~~~~~~~~   90 (176)
                      +-|..+|-..+...-+.|+.      ++..++|++.... ++|+..-    |--|--   .+...+++++|.++|+.+++
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            34778888888888888888      8888899887764 4554311    111111   12334799999999999987


Q ss_pred             cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 030489           91 KGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNIS  129 (176)
Q Consensus        91 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  129 (176)
                      .+-.. ...|......-.+.|+..+|.+++......+..
T Consensus        89 ~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           89 NCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             HhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            64443 777777777778899999999999987764433

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.30  E-value=0.022  Score=44.26  Aligned_cols=77  Identities=17%  Similarity=0.071  Sum_probs=44.1

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-------CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC
Q 030489           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGP-------KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA  133 (176)
Q Consensus        61 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  133 (176)
                      +...|..+...+.+.++++.|.+.|..+.+...       .-+..-...+.......|+++.|..+|.+.          
T Consensus       680 ~~~~W~~la~~al~~~~~~~A~~~y~~~~d~~~l~~l~~~~~~~~~~~~~~~~a~~~~~~~~A~~~~~~~----------  749 (814)
T 3mkq_A          680 AEMKWRALGDASLQRFNFKLAIEAFTNAHDLESLFLLHSSFNNKEGLVTLAKDAETTGKFNLAFNAYWIA----------  749 (814)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH----------
T ss_pred             cHhHHHHHHHHHHHcCCHHHHHHHHHHccChhhhHHHHHHcCCHHHHHHHHHHHHHcCchHHHHHHHHHc----------
Confidence            567777777777778888887777776643210       112223333444444445555554444332          


Q ss_pred             CChHHHHHHHHHHH
Q 030489          134 GRPTEAMQLYDSML  147 (176)
Q Consensus       134 ~~~~~a~~~~~~m~  147 (176)
                      |++++|.+++.++.
T Consensus       750 g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          750 GDIQGAKDLLIKSQ  763 (814)
T ss_dssp             TCHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHcC
Confidence            56777777776654

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.01  E-value=0.12  Score=31.35  Aligned_cols=56  Identities=13%  Similarity=0.039  Sum_probs=35.5

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------CChHHHHHHHHHHHHCCCC
Q 030489           96 NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------GRPTEAMQLYDSMLRNGIM  152 (176)
Q Consensus        96 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~~a~~~~~~m~~~g~~  152 (176)
                      +....+..++.+...|+-++-.+++..+.. +..|+..            |+..++.+++.+.-+.|++
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 LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            455666677777777777777777777532 1222222            7777777777777777653

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.98  E-value=0.083  Score=37.83  Aligned_cols=78  Identities=21%  Similarity=0.284  Sum_probs=52.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----HCCCCCCCCCChHHH
Q 030489           65 FTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC-----ENNISPNIAGRPTEA  139 (176)
Q Consensus        65 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~~~~~~~~~~~~~a  139 (176)
                      ...++..+...|+++++...++.+....+ .+...|..+|.+|.+.|+..+|++.|+...     +.|+.|.     .+.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P-~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~-----~~l  247 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG-----PTL  247 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC-----HHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCC-----HHH
Confidence            44566667777777777777777776643 477777777777777777777777777653     3466665     345


Q ss_pred             HHHHHHHHH
Q 030489          140 MQLYDSMLR  148 (176)
Q Consensus       140 ~~~~~~m~~  148 (176)
                      .++++.+..
T Consensus       248 ~~l~~~il~  256 (388)
T 2ff4_A          248 RALNERILR  256 (388)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHc
Confidence            555555553

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.84  E-value=0.094  Score=37.54  Aligned_cols=69  Identities=17%  Similarity=0.135  Sum_probs=52.6

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHh-----cCCCCcHHHH
Q 030489           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLE-----KGPKANVVTY  100 (176)
Q Consensus        31 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  100 (176)
                      ..++..+...|++.+++..+..+.... +.+...+..+|.++.+.|+..+|.+.|+.+.+     .|+.|+..+-
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            345666778888888888888876653 44777888899999999999999988887653     5788776543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.81  E-value=0.14  Score=30.47  Aligned_cols=86  Identities=16%  Similarity=0.037  Sum_probs=62.9

Q ss_pred             hhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhH---HHHHHHHHHhCCCC-cChhhHHHHHHHHHhcCCHHHHHH
Q 030489            8 LDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDE---AVQLFEKLTCVQLK-PNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      +..+.+-|......|. ++..+-..+..++.+......   ++.++......+.+ -...-...|.-++.+.|++++|.+
T Consensus        17 l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~   95 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALK   95 (126)
T ss_dssp             HHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHH
Confidence            3445556665555553 688888888888988887666   89999998876421 133344556788999999999999


Q ss_pred             HHHHHHhcCCC
Q 030489           84 MFSKMLEKGPK   94 (176)
Q Consensus        84 ~~~~~~~~~~~   94 (176)
                      .++.+.+..+.
T Consensus        96 ~~~~lL~~eP~  106 (126)
T 1nzn_A           96 YVRGLLQTEPQ  106 (126)
T ss_dssp             HHHHHHHHCTT
T ss_pred             HHHHHHHhCCC
Confidence            99999987543

>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=95.75  E-value=0.12  Score=29.37  Aligned_cols=68  Identities=13%  Similarity=0.149  Sum_probs=49.1

Q ss_pred             HHhCC-ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           37 YCSLN-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        37 ~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +.+.. +.-+..+-++.+......|++....+.+.+|.+.+++.-|..+|+-++..- .....+|..++.
T Consensus        19 F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           19 FNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             HTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            33444 566777778888888888888888888888888888888888888887542 223445665554

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.53  E-value=0.22  Score=31.44  Aligned_cols=97  Identities=16%  Similarity=0.134  Sum_probs=66.8

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 030489           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM  113 (176)
Q Consensus        34 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  113 (176)
                      .....+.|+++.|.++.+.+      -+...|..|.....+.|+++-|++.|....+         |..+.-.|.-.|+.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~   76 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDV   76 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCH
T ss_pred             HHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCH
Confidence            34556889999999998776      2788999999999999999999999987653         33444555556666


Q ss_pred             HHHHHHHHHHHHCCCCCCCC-------CChHHHHHHHHHH
Q 030489          114 KSAFDVYEEMCENNISPNIA-------GRPTEAMQLYDSM  146 (176)
Q Consensus       114 ~~a~~~~~~m~~~~~~~~~~-------~~~~~a~~~~~~m  146 (176)
                      ++..++-+.....|- .+..       |+++++.++|.+.
T Consensus        77 e~L~kla~iA~~~g~-~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           77 NKLSKMQNIAQTRED-FGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHHHHTTC-HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCcc-HHHHHHHHHHcCCHHHHHHHHHHC
Confidence            555444443332221 1111       8888888887554

>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=95.15  E-value=0.26  Score=29.60  Aligned_cols=45  Identities=13%  Similarity=0.123  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           45 EAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKML   89 (176)
Q Consensus        45 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   89 (176)
                      +..+-++.+......|++......+.+|.+.+++.-|..+|+-++
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK  115 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK  115 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            333444444444444555555555555555555555555554444

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.75  E-value=0.19  Score=39.30  Aligned_cols=108  Identities=13%  Similarity=0.088  Sum_probs=65.1

Q ss_pred             HHHHHHHHhcCC-HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH------CCCCCCCC----
Q 030489           66 TILIDAFCKEGR-MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ-NMKSAFDVYEEMCE------NNISPNIA----  133 (176)
Q Consensus        66 ~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~------~~~~~~~~----  133 (176)
                      ..|+..+.-.++ .+.|..+|+++.......+......++..+.+.+ +--+|.+++.+..+      ....+...    
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            445555555555 5778888888887653322222233333333322 22234444443321      11111110    


Q ss_pred             -------------------CChHHHHHHHHHHHHCCCCCc-HHHHHHHHHHhhcccCccccC
Q 030489          134 -------------------GRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQEHC  175 (176)
Q Consensus       134 -------------------~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~  175 (176)
                                         ++++.|+++-++....  .|+ ..+|..|..+|...|+++.|.
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~AL  391 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKAL  391 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHH
Confidence                               8899999999998865  555 779999999999999999875

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.40  E-value=1  Score=32.88  Aligned_cols=143  Identities=13%  Similarity=0.094  Sum_probs=89.1

Q ss_pred             hCChhHHHHHHHHHhhC-----CCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-CCC------------------c
Q 030489            5 ECHLDAALKLFGQLTDR-----GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-QLK------------------P   60 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~------------------~   60 (176)
                      .|+++.|++.+-.+.+.     ....+......++..|.+.++|+...+.+..+.+. |..                  |
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCC
Confidence            35677788777665532     24456777888999999999988876655444322 211                  1


Q ss_pred             --Ch-------------------------hhHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCCC---cHHHHHHHHHHHH
Q 030489           61 --NS-------------------------ITFTILIDAFCKEGRMDDATMMFSKMLEK--GPKA---NVVTYSCLIDGYF  108 (176)
Q Consensus        61 --~~-------------------------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~---~~~~~~~l~~~~~  108 (176)
                        +.                         .....|...+-..|++.+|.+++.++...  +...   -...+...+..|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence              11                         11134567777888888888888887632  1111   1345666778888


Q ss_pred             hcCCHHHHHHHHHHHHHC--CCCCCCC----------------CChHHHHHHHHHHH
Q 030489          109 KSQNMKSAFDVYEEMCEN--NISPNIA----------------GRPTEAMQLYDSML  147 (176)
Q Consensus       109 ~~g~~~~a~~~~~~m~~~--~~~~~~~----------------~~~~~a~~~~~~m~  147 (176)
                      ..+++..|..+++++...  ...+...                +++.+|.+.|.+..
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            888888888888876421  1111111                77777777776664

>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=94.29  E-value=0.48  Score=29.17  Aligned_cols=94  Identities=13%  Similarity=0.166  Sum_probs=59.4

Q ss_pred             hHHHHHHHHHhhCCCCccH-HHHHHHHHH------HHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            9 DAALKLFGQLTDRGLEPDI-ITYNTIICG------YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         9 ~~a~~~~~~~~~~~~~~~~-~~~~~ll~~------~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      ++..++|++.... ++|+. ..|..-+..      +...++.++|.++|+.+.+.+-.- ...|......=.+.|++.+|
T Consensus        36 ~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kA  113 (161)
T 4h7y_A           36 NKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKS  113 (161)
T ss_dssp             HHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHH
Confidence            7777888877764 45532 111111111      123478999999999987653333 44555555555889999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      .+++...+..+..| .......+.
T Consensus       114 RkILg~AiG~~~k~-~~~le~a~~  136 (161)
T 4h7y_A          114 KQLLQKAVERGAVP-LEMLEIALR  136 (161)
T ss_dssp             HHHHHHHHHTTCBC-HHHHHHHHH
T ss_pred             HHHHHHHhccCCCc-HHHHHHHHH
Confidence            99999999987764 334444333

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.88  E-value=1.1  Score=32.50  Aligned_cols=85  Identities=16%  Similarity=0.062  Sum_probs=62.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCCCC----
Q 030489           63 ITFTILIDAFCKEGRMDDATMMFSKMLEK--GPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN---NISPNIA----  133 (176)
Q Consensus        63 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~----  133 (176)
                      .+...+...|.+.|+++.|.+.|.++...  +...-...+-.++..+...++|..+...+.+....   +..+...    
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            35667888899999999999999988854  33445667788888899999999999888887532   2111111    


Q ss_pred             ----------CChHHHHHHHHHHH
Q 030489          134 ----------GRPTEAMQLYDSML  147 (176)
Q Consensus       134 ----------~~~~~a~~~~~~m~  147 (176)
                                +++..|-+.|-+..
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~  235 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSL  235 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHh
Confidence                      88888888887765

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.59  E-value=2  Score=35.42  Aligned_cols=166  Identities=11%  Similarity=0.052  Sum_probs=91.5

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCc-----------------------
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKP-----------------------   60 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-----------------------   60 (176)
                      +.++++.|.++.....     .+...-..+..++...|++++|.+.|.+... |+..                       
T Consensus       824 ~~~~~~~~~~l~~~~~-----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~~~~~~  897 (1139)
T 4fhn_B          824 LFKQYNACMQLIGWLN-----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKYHHQNL  897 (1139)
T ss_dssp             HHSCTTHHHHHHHHSC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTTTSCCS
T ss_pred             HhhhHHHHHHHhhhcc-----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccccccccccc
Confidence            3455555555443322     2333334566677788888888888865421 1100                       


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--Cc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC---
Q 030489           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK--AN--VVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA---  133 (176)
Q Consensus        61 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---  133 (176)
                      -..-|.-++..+-+.+.++.+.++-...++...+  ++  ...|..+.+++...|++++|...+..+......-+..   
T Consensus       898 l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~~cLr~L  977 (1139)
T 4fhn_B          898 LSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKKSCLLDF  977 (1139)
T ss_dssp             SHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            1123556677777777777777766655543211  11  1257778888888888888877776654432211111   


Q ss_pred             -------------------CChHHHHHHHHHHHH-C-CCCCcHHHHHHHHHHhhcccCccccC
Q 030489          134 -------------------GRPTEAMQLYDSMLR-N-GIMPDGLLLSTLADYNLQSSGSQEHC  175 (176)
Q Consensus       134 -------------------~~~~~a~~~~~~m~~-~-g~~p~~~~~~~l~~~~~~~g~~~~A~  175 (176)
                                         |..++..+++...-+ . .+...+.-|..|-.-....|+...|+
T Consensus       978 V~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA 1040 (1139)
T 4fhn_B          978 VNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAA 1040 (1139)
T ss_dssp             HHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHH
T ss_pred             HHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHH
Confidence                               556666665544321 1 11222244666666677777776654

>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=93.22  E-value=0.77  Score=27.49  Aligned_cols=70  Identities=9%  Similarity=-0.006  Sum_probs=47.4

Q ss_pred             CCCcChhhHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           57 QLKPNSITFTILIDAFCKEGR---MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        57 ~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +-.|+..|-....-+++++..   ..+++.+++++.+.+..-....+-.|.-++.+.|+++.|.+..+.+.+.
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            334566555555556666554   4467788888877664334556667777888888888888888887753

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=93.00  E-value=0.69  Score=26.31  Aligned_cols=54  Identities=9%  Similarity=0.061  Sum_probs=46.3

Q ss_pred             HHhcC-CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           72 FCKEG-RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        72 ~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +-+.. +.-++.+-+..+...+..|++.+....+.+|.+.+++.-|.++++-++.
T Consensus        19 F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           19 FNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             HTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            33444 5567788888888889999999999999999999999999999998865

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.20  E-value=2.5  Score=30.72  Aligned_cols=52  Identities=17%  Similarity=-0.008  Sum_probs=27.9

Q ss_pred             hhhCChhHHHHHHHHHhhC--CCCccHHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDR--GLEPDIITYNTIICGYCSLNRLDEAVQLFEKLT   54 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~   54 (176)
                      .+.|+++.|.+.|.++...  +...-...+-.+++.+...+++..+...+.+..
T Consensus       142 ~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          142 AQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             HHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            4556666666666665543  222234455555566666666666655555543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.70  E-value=0.65  Score=28.99  Aligned_cols=52  Identities=10%  Similarity=-0.086  Sum_probs=35.0

Q ss_pred             hhhCChhHHHHHHHHHhhC-CCCcc-------HHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDR-GLEPD-------IITYNTIICGYCSLNRLDEAVQLFEKLT   54 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~-~~~~~-------~~~~~~ll~~~~~~~~~~~a~~~~~~m~   54 (176)
                      ...+.++.|+-+.+.+... +.+|+       ..++..+.+++...+++.+|...|++..
T Consensus        31 ~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           31 AAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            4567778887777765432 11222       2356677788888889998888888754

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=91.65  E-value=2.2  Score=28.96  Aligned_cols=113  Identities=16%  Similarity=0.135  Sum_probs=68.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC--CcChhhHHHHHHHHHhcCCHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL--KPNSITFTILIDAFCKEGRMD   79 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~   79 (176)
                      +.+.|++++|++....-++.. |-|...-..++..+|-.|+|++|.+-++...+...  .|...+|..+|.+        
T Consensus         7 ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~a--------   77 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA--------   77 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH--------
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH--------
Confidence            356788888888887777664 44777788888888888999988888887776421  1122233333332        


Q ss_pred             HHHHHHHHHHhcCCCC-----cHHHHHHHHHHHHh--cCCHHHHHHHHHHHHH
Q 030489           80 DATMMFSKMLEKGPKA-----NVVTYSCLIDGYFK--SQNMKSAFDVYEEMCE  125 (176)
Q Consensus        80 ~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~--~g~~~~a~~~~~~m~~  125 (176)
                        +..=.++..-+-.|     ...-...++.+...  .|+.++|..+-.+..+
T Consensus        78 --E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e  128 (273)
T 1zbp_A           78 --AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  128 (273)
T ss_dssp             --HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Confidence              12122222222111     22234455555544  4888888888887754

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=91.42  E-value=0.81  Score=31.01  Aligned_cols=73  Identities=14%  Similarity=0.196  Sum_probs=56.6

Q ss_pred             HHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CcHHHHHHHHHHHH
Q 030489           35 CGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK--ANVVTYSCLIDGYF  108 (176)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~  108 (176)
                      ....+.|+++++++....-.+.. +-|...-..++..+|-.|++++|.+.++...+....  |....|..+|.+=.
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 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQ   79 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHHHH
Confidence            44678999999999998887774 337777778889999999999999999998876543  23345677776654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=91.39  E-value=1.5  Score=26.61  Aligned_cols=68  Identities=9%  Similarity=0.009  Sum_probs=47.2

Q ss_pred             CcChhhHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           59 KPNSITFTILIDAFCKEGR---MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        59 ~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .|+..+-....-+++++..   ..+++.+++++.+.+..-.....-.|.-++.+.|++++|.+..+.+.+.
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            4566665556666666654   4567788888877655434555556677888888888888888888764

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.32  E-value=1.7  Score=27.11  Aligned_cols=103  Identities=13%  Similarity=0.136  Sum_probs=67.1

Q ss_pred             CCCCccH--HHHHHHHHHHHhCCChhHHHHHHHHHHhC-CCCcCh-------hhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 030489           21 RGLEPDI--ITYNTIICGYCSLNRLDEAVQLFEKLTCV-QLKPNS-------ITFTILIDAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        21 ~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~   90 (176)
                      .|+.|..  .++..-+..+...+.++.|+-+.+.+... +..|+.       .++..+.+++...+++.+|...|++..+
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            3555543  34456677888999999999988876543 122332       3556677899999999999999998542


Q ss_pred             cC------------------------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           91 KG------------------------PKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        91 ~~------------------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      ..                        ...+...--.+..+|.+.+++++|+.+++.+
T Consensus        92 ~~k~l~k~~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A           92 QKKALSKTSKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             HHHCC--------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             HHHHHhcCCCccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence            10                        0111233344778888999999999888764

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=90.25  E-value=5.6  Score=32.85  Aligned_cols=110  Identities=9%  Similarity=0.023  Sum_probs=78.0

Q ss_pred             chhhCChhHHHHHHHHHhhC----CC------------------CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCC
Q 030489            2 LIKECHLDAALKLFGQLTDR----GL------------------EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK   59 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~----~~------------------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~   59 (176)
                      |...|++++|.++|.+....    +.                  ..-..-|..++..+-+.+.++.++++-....+..-.
T Consensus       852 ~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~  931 (1139)
T 4fhn_B          852 YLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKET  931 (1139)
T ss_dssp             HHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCS
T ss_pred             HHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccC
Confidence            56789999999999765321    00                  001234678888899999999999888776654211


Q ss_pred             --cC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 030489           60 --PN--SITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM  113 (176)
Q Consensus        60 --~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  113 (176)
                        ++  ...|..+++++...|++++|...+-.+.....  -......|+..++..|..
T Consensus       932 ~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~~cLr~LV~~lce~~~~  987 (1139)
T 4fhn_B          932 DDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KKSCLLDFVNQLTKQGKI  987 (1139)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CHHHHHHHHHHHHHHCCH
T ss_pred             CChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HHHHHHHHHHHHHhCCCh
Confidence              11  12578899999999999999999987766543  456777788777776654

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=90.16  E-value=2  Score=25.92  Aligned_cols=50  Identities=6%  Similarity=0.018  Sum_probs=43.7

Q ss_pred             CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +.-+..+-+..+...+..|++.+....+.+|.+.+|+.-|.++|+-++..
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K  117 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK  117 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            44566777888888889999999999999999999999999999988653

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=88.65  E-value=2.6  Score=25.23  Aligned_cols=72  Identities=13%  Similarity=0.072  Sum_probs=54.8

Q ss_pred             CCCccHHHHHHHHHHHHhCCCh---hHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 030489           22 GLEPDIITYNTIICGYCSLNRL---DEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGP   93 (176)
Q Consensus        22 ~~~~~~~~~~~ll~~~~~~~~~---~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~   93 (176)
                      +..|+..+-.....++.+....   .+++.+++...+.+..-.......|.-++.+.|+++.|.+..+.+.+..+
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP  109 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  109 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCT
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCC
Confidence            4567777777777778777764   57889998888765322345566677899999999999999999988654

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=88.16  E-value=2.3  Score=24.11  Aligned_cols=49  Identities=12%  Similarity=0.034  Sum_probs=19.8

Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 030489           37 YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK   91 (176)
Q Consensus        37 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   91 (176)
                      +.+.|++++|..+.+.+    ..||...|-.|..  .+.|..+++..-+..+...
T Consensus        49 LmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~rL~~la~s   97 (115)
T 2uwj_G           49 LANQGRYQEALAFAHGN----PWPALEPWFALCE--WHLGLGAALDRRLAGLGGS   97 (115)
T ss_dssp             HHHTTCHHHHHGGGTTC----CCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTC
T ss_pred             HHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHHHHHHHhC
Confidence            33444444444433221    1344444433322  3344444444444444433

>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=87.99  E-value=2.4  Score=24.09  Aligned_cols=47  Identities=9%  Similarity=0.053  Sum_probs=20.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 030489           71 AFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEM  123 (176)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  123 (176)
                      .+...|++++|..+.+.+    +.||...|-.|-..  +.|-.+++..-+..+
T Consensus        49 SLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce~--rlGl~s~le~rL~~l   95 (116)
T 2p58_C           49 SLMNRGDYASALQQGNKL----AYPDLEPWLALCEY--RLGLGSALESRLNRL   95 (116)
T ss_dssp             HHHHTTCHHHHHHHHTTS----CCGGGHHHHHHHHH--HHTCHHHHHHHHHHH
T ss_pred             HHHcchhHHHHHHhcCCC----CCchHHHHHHHHHH--hcccHHHHHHHHHHH
Confidence            344555555555444333    24455555444332  334444444444333

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=87.97  E-value=0.002  Score=47.42  Aligned_cols=134  Identities=12%  Similarity=0.043  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (176)
                      +..|..++.+..+.|.+++-+.++...++.  .-++..=+.|+-+|++.++..+.++++       ..|+..-...+.+-
T Consensus        83 ps~y~eVi~~A~~~~~~edLv~yL~MaRk~--~ke~~IDteLi~ayAk~~rL~elEefl-------~~~N~A~iq~VGDr  153 (624)
T 3lvg_A           83 PSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFI-------NGPNNAHIQQVGDR  153 (624)
T ss_dssp             CCSSSHHHHHTTTSSCCTTHHHHHHTTSTT--CCSTTTTHHHHHHHHTSCSSSTTTSTT-------SCCSSSCTHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccHHHHHHHHHhhCcHHHHHHHH-------cCCCcccHHHHHHH
Confidence            334444455555555555544444333322  112233334455555555443322221       12333334444455


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCCC---CChHHHHHHHHHHHHCCCCCcHHHHHHHHHHhhcccCccccC
Q 030489          107 YFKSQNMKSAFDVYEEMCENNISPNIA---GRPTEAMQLYDSMLRNGIMPDGLLLSTLADYNLQSSGSQEHC  175 (176)
Q Consensus       107 ~~~~g~~~~a~~~~~~m~~~~~~~~~~---~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  175 (176)
                      |...|.++.|.-+|..+..-..-....   +++..|.+.-++      .-+..||..+-.+|...+++..|-
T Consensus       154 cf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArK------Ans~ktWKeV~~ACvd~~EfrLAq  219 (624)
T 3lvg_A          154 CYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARK------ANSTRTWKEVCFACVDGKEFRLAQ  219 (624)
T ss_dssp             HHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTT------CCSSCSHHHHTHHHHHSCTTTTTT
T ss_pred             HHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHh------cCChhHHHHHHHHHhCchHHHHHH
Confidence            555555555554444332211111110   444444333222      235678999999999998888773

>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=86.18  E-value=3.8  Score=24.78  Aligned_cols=60  Identities=12%  Similarity=0.081  Sum_probs=32.0

Q ss_pred             HHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCH
Q 030489           17 QLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (176)
Q Consensus        17 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   78 (176)
                      .+.+.|++++..= ..++..+...+ .-.|.++++.+.+.+...+..|...-++.+...|-+
T Consensus         9 ~L~~~g~r~T~qR-~~Il~~l~~~~-h~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Glv   68 (145)
T 3eyy_A            9 DLRQRGYRLTPQR-QLVLEAVDTLE-HATPDDILGEVRKTASGINISTVYRTLELLEELGLV   68 (145)
T ss_dssp             HHHTTTCCCCHHH-HHHHHHHHHHS-SBCHHHHHHHHHTTCTTCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHHcCCCcCHHH-HHHHHHHHhcC-CCCHHHHHHHHHhhCCCCCHhHHHHHHHHHHHCCcE
Confidence            3445565554432 23333444444 556666666666665555666655556666555543

>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42

Probab=85.61  E-value=4.1  Score=24.27  Aligned_cols=60  Identities=18%  Similarity=0.150  Sum_probs=31.5

Q ss_pred             HhhCCCCccHHHHHHHHHHHHhCC-ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCH
Q 030489           18 LTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (176)
Q Consensus        18 ~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   78 (176)
                      +.+.|.+++..=. .++..+...+ ..-.|.++++.+.+.+...+..|...-++.+...|-+
T Consensus         9 l~~~g~r~T~qR~-~Il~~L~~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv   69 (136)
T 1mzb_A            9 LRKAGLKVTLPRV-KILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLV   69 (136)
T ss_dssp             HHHTTCCCCHHHH-HHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHCCCCCCHHHH-HHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCcE
Confidence            4455555443322 3444444444 5556666666666665555555555555555555543

>2xig_A Ferric uptake regulation protein; hpfur, transcription, homeostasis; HET: CIT; 1.85A {Helicobacter pylori}

Probab=85.15  E-value=4.6  Score=24.54  Aligned_cols=44  Identities=5%  Similarity=0.006  Sum_probs=19.7

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC
Q 030489           33 IICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG   76 (176)
Q Consensus        33 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   76 (176)
                      ++..+...+..-.|.++++.+.+.+...+..|....++.+...|
T Consensus        32 IL~~l~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~G   75 (150)
T 2xig_A           32 VVSVLYRSGTHLSPEEITHSIRQKDKNTSISSVYRILNFLEKEN   75 (150)
T ss_dssp             HHHHHHHCSSCBCHHHHHHHHHHHSTTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhCCCCCCHHHHHHHHHHhCCCCCHhhHHHHHHHHHHCC
Confidence            33333334444445555555544443444444444444444444

>2w57_A Ferric uptake regulation protein; gene regulation, transcription regulation, transport, iron, repressor, DNA-binding, transcription; 2.60A {Vibrio cholerae}

Probab=85.10  E-value=4.7  Score=24.52  Aligned_cols=60  Identities=20%  Similarity=0.203  Sum_probs=31.9

Q ss_pred             HhhCCCCccHHHHHHHHHHHHhCC-ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCH
Q 030489           18 LTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (176)
Q Consensus        18 ~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   78 (176)
                      +.+.|++++..=. .++..+...+ ..-.|.++++.+.+.+...+..|...-++.+...|-+
T Consensus         8 l~~~g~r~T~qR~-~Il~~L~~~~~~h~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv   68 (150)
T 2w57_A            8 LKDAGLKVTLPRL-KILEVLQQPECQHISAEELYKKLIDLGEEIGLATVYRVLNQFDDAGIV   68 (150)
T ss_dssp             HHHTTCCCCHHHH-HHHHHHTSGGGSSEEHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHcCCCCCHHHH-HHHHHHHhCCCCCCCHHHHHHHHHHhCCCCCHHHHHHHHHHHHHCCcE
Confidence            4455555444322 3344444444 4555666666666655555555655556655555543

>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*

Probab=84.54  E-value=4.9  Score=24.25  Aligned_cols=59  Identities=14%  Similarity=0.057  Sum_probs=30.7

Q ss_pred             HhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC
Q 030489           18 LTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR   77 (176)
Q Consensus        18 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   77 (176)
                      +.+.|.+++..=. .++..+...+..-.|.++++.+.+.+...+..|....++.+...|-
T Consensus        13 l~~~g~r~T~qR~-~Il~~L~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Gl   71 (145)
T 2fe3_A           13 LKETGVRITPQRH-AILEYLVNSMAHPTADDIYKALEGKFPNMSVATVYNNLRVFRESGL   71 (145)
T ss_dssp             HHHTTCCCCHHHH-HHHHHHHHCSSCCCHHHHHHHHGGGCTTCCHHHHHHHHHHHHHTTS
T ss_pred             HHHcCCCCCHHHH-HHHHHHHhCCCCCCHHHHHHHHHHhCCCCChhhHHHHHHHHHHCCC
Confidence            4455555443322 3344444445555566666666655555555555555555555554

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=84.48  E-value=9.3  Score=27.49  Aligned_cols=93  Identities=15%  Similarity=0.053  Sum_probs=63.4

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhCCCCcC-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc--C--CCCcHHHHHH
Q 030489           32 TIICGYCSLNRLDEAVQLFEKLTCVQLKPN-----SITFTILIDAFCKEGRMDDATMMFSKMLEK--G--PKANVVTYSC  102 (176)
Q Consensus        32 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~--~~~~~~~~~~  102 (176)
                      .+...|...|++.+|.+++..+.+.--..|     ...+-.-+..|...+++.++...+......  .  ++|.....-.
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~  183 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALD  183 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHH
Confidence            688899999999999999988876421222     234555667889999999999999876532  2  2333322222


Q ss_pred             HH--HHHH-hcCCHHHHHHHHHHHH
Q 030489          103 LI--DGYF-KSQNMKSAFDVYEEMC  124 (176)
Q Consensus       103 l~--~~~~-~~g~~~~a~~~~~~m~  124 (176)
                      ..  ..+. ..++|..|...|-+..
T Consensus       184 ~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          184 LQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHhccCHHHHHHHHHHHH
Confidence            22  2334 6889999988887753

>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=83.21  E-value=6  Score=24.27  Aligned_cols=54  Identities=13%  Similarity=0.192  Sum_probs=42.8

Q ss_pred             hHHHHHHHHHHhCCCCcChh-hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcH
Q 030489           44 DEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANV   97 (176)
Q Consensus        44 ~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~   97 (176)
                      +++.++|..|..+|+--... .|-.-...+-..|++.+|.++|+.-++.+-.|-.
T Consensus        82 ~dp~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P~~  136 (152)
T 4a1g_A           82 SDLHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQAEPRE  136 (152)
T ss_dssp             SCHHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHH
T ss_pred             CCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccHH
Confidence            44899999999988765544 4566677788999999999999999888766644

>3bu8_A Telomeric repeat-binding factor 2; TRF2 TRFH domain TRF2 dimerization domain TIN2 peptide, alternative splicing, cell cycle, chromosomal protein; 2.15A {Homo sapiens} SCOP: a.146.1.1 PDB: 3bua_A* 1h6p_A

Probab=82.73  E-value=7.9  Score=25.32  Aligned_cols=49  Identities=8%  Similarity=0.121  Sum_probs=32.6

Q ss_pred             hhHHHHHHHHHhhCCCCccH--HHH-----HHHHHHHHhCCChhHHHHHHHHHHhC
Q 030489            8 LDAALKLFGQLTDRGLEPDI--ITY-----NTIICGYCSLNRLDEAVQLFEKLTCV   56 (176)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~~~--~~~-----~~ll~~~~~~~~~~~a~~~~~~m~~~   56 (176)
                      ++.|+.+|+.+.+.-.-++.  ...     ...+-.|.+.|.+++|.+++++....
T Consensus        88 LESAl~v~~~I~~e~~l~~~l~e~i~~llk~qAV~VCiek~~f~kA~eiLkr~~~~  143 (235)
T 3bu8_A           88 LESAINVLEMIKTEFTLTEAVVESSRKLVKEAAVIICIKNKEFEKASKILKKHMSK  143 (235)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHhcC
Confidence            46788889888765322111  111     24455688899999999999887765

>2d2s_A Exocyst complex component EXO84; tethering complex, EXO84P, endocytosis/exocytosis complex; 2.85A {Saccharomyces cerevisiae} SCOP: a.118.17.2

Probab=82.51  E-value=7.5  Score=25.74  Aligned_cols=84  Identities=11%  Similarity=0.119  Sum_probs=50.5

Q ss_pred             chhhCChhHHHHHHHHHhhC--CCCc----cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhc
Q 030489            2 LIKECHLDAALKLFGQLTDR--GLEP----DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKE   75 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~--~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   75 (176)
                      +...+++++|.++.++..+.  +.++    ........+..-.....-.-+..+.+.+..   .++.......+..+.+.
T Consensus        28 ~IA~r~feeAv~lle~~~~~l~~~~~~~~~~~~~~~~~l~~ki~eR~~~L~~~L~~~l~~---~~~~~~~r~~v~~L~rL  104 (235)
T 2d2s_A           28 ELARLRFESAVETLLDIESQLEDLSERISDEELMLLNLISLKIEQRREAISSKLSQSILS---SNEIVHLKSGTENMIKL  104 (235)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTC-------CHHHHHHHHHHHHHHHHHHHHHHHHHHT---CSSHHHHHHHHHHHHHT
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHhCcccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHC
Confidence            34568899999998877643  2232    112223333333333334444445555533   45666777788899999


Q ss_pred             CCHHHHHHHHHHH
Q 030489           76 GRMDDATMMFSKM   88 (176)
Q Consensus        76 ~~~~~a~~~~~~~   88 (176)
                      |+.++|.++|=+.
T Consensus       105 g~~~~A~~lfL~~  117 (235)
T 2d2s_A          105 GLPEQALDLFLQN  117 (235)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             CChhHHHHHHHHH
Confidence            9999999887544

>2ion_A PDCD4, programmed cell death 4, PDCD4; alpha-helical, antitumor protein; 1.57A {Mus musculus} SCOP: a.118.1.14 PDB: 2ios_A 2iol_A

Probab=82.38  E-value=6.5  Score=24.07  Aligned_cols=66  Identities=8%  Similarity=0.196  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC--HHHHHHHHHHHHhcCCC
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR--MDDATMMFSKMLEKGPK   94 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~--~~~a~~~~~~~~~~~~~   94 (176)
                      ...+.++.-|...|+.++|.+.++++....+. ...+...+..++-+.++  .+.+..++..+...++-
T Consensus        10 kki~~lL~EY~~~~D~~EA~~cl~EL~~p~f~-~e~V~~~i~~alE~~~~~~re~~~~LL~~L~~~~~i   77 (152)
T 2ion_A           10 KEIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTI   77 (152)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHhCCCcch-HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCc
Confidence            34567788888888888888888887532111 22333344444544322  34566666666655544

>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=82.22  E-value=6.9  Score=24.33  Aligned_cols=55  Identities=7%  Similarity=0.160  Sum_probs=43.4

Q ss_pred             hHHHHHHHHHHhCCCCcChh-hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHH
Q 030489           44 DEAVQLFEKLTCVQLKPNSI-TFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVV   98 (176)
Q Consensus        44 ~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   98 (176)
                      +.+.++|..|..+|+--... .|-.-...+-..|++.+|.++|..-++.+-.|...
T Consensus        77 ~~p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~A~P~~~  132 (164)
T 2wvi_A           77 NEPLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQKAEPLER  132 (164)
T ss_dssp             SCHHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHHH
T ss_pred             CCHHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHH
Confidence            45778999999998765544 45566677888999999999999999887776544

>4ets_A Ferric uptake regulation protein; metal binding protein, transcription factor; 2.10A {Campylobacter jejuni subsp}

Probab=81.90  E-value=4.5  Score=25.01  Aligned_cols=57  Identities=7%  Similarity=0.043  Sum_probs=27.6

Q ss_pred             hCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCCCcHHHHHHHHHHHHhcCC
Q 030489           55 CVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEK--GPKANVVTYSCLIDGYFKSQN  112 (176)
Q Consensus        55 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~  112 (176)
                      +.|.+++.. -..++..+...+..-.|.++++.+.+.  +...+..|...-++.+.+.|-
T Consensus        26 ~~g~r~T~q-R~~IL~~L~~~~~h~sA~eI~~~l~~~~~~~~is~aTVYRtL~~L~e~Gl   84 (162)
T 4ets_A           26 QGGLKYTKQ-REVLLKTLYHSDTHYTPESLYMEIKQAEPDLNVGIATVYRTLNLLEEAEM   84 (162)
T ss_dssp             HHTCCCCHH-HHHHHHHHHSCCSCBCHHHHHHHHHHHCGGGCCCHHHHHHHHHHHHHTTS
T ss_pred             HcCCCCCHH-HHHHHHHHHhCCCCCCHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHCCC
Confidence            345544332 223344444444555555555555554  444455554455555555553

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=81.66  E-value=5.4  Score=22.67  Aligned_cols=80  Identities=14%  Similarity=0.079  Sum_probs=57.3

Q ss_pred             CCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHH
Q 030489           40 LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDV  119 (176)
Q Consensus        40 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  119 (176)
                      ....++|..+-+.+...+.  ...+--+-+..+...|++++|..+.+.+    +.||...|-.|-..  +.|-.+++..-
T Consensus        19 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce~--rlGl~s~le~r   90 (115)
T 2uwj_G           19 QHCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGN----PWPALEPWFALCEW--HLGLGAALDRR   90 (115)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTC----CCGGGHHHHHHHHH--HTTCHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHHH--hcccHHHHHHH
Confidence            3467888888888887653  2222223346678999999999887665    47899999887664  77888888777


Q ss_pred             HHHHHHCC
Q 030489          120 YEEMCENN  127 (176)
Q Consensus       120 ~~~m~~~~  127 (176)
                      +..+...|
T Consensus        91 L~~la~sg   98 (115)
T 2uwj_G           91 LAGLGGSS   98 (115)
T ss_dssp             HHHHHTCS
T ss_pred             HHHHHhCC
Confidence            76665544

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=81.50  E-value=6.8  Score=23.76  Aligned_cols=72  Identities=13%  Similarity=0.072  Sum_probs=54.5

Q ss_pred             CCCccHHHHHHHHHHHHhCCCh---hHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 030489           22 GLEPDIITYNTIICGYCSLNRL---DEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGP   93 (176)
Q Consensus        22 ~~~~~~~~~~~ll~~~~~~~~~---~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~   93 (176)
                      +..|+..+-.....++.+....   .+++.+++.....+..-...-...|.-++.+.|+++.|.+..+.+.+..+
T Consensus        34 ~~~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP  108 (144)
T 1y8m_A           34 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  108 (144)
T ss_dssp             STTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCC
T ss_pred             cCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC
Confidence            3467888877888888887764   57888998888754322334445567889999999999999999998754

>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=80.81  E-value=5.9  Score=22.55  Aligned_cols=86  Identities=13%  Similarity=0.088  Sum_probs=60.1

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHH
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFS   86 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~   86 (176)
                      ..++|..+-+.+...+.  ...+--.-+..+.+.|++++|..+.+.+.    .||...|-.|..  .+.|..+++..-+.
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~   93 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALESRLN   93 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            56788888888887753  22222233445779999999988875543    789888877655  57788888888887


Q ss_pred             HHHhcCCCCcHHHHH
Q 030489           87 KMLEKGPKANVVTYS  101 (176)
Q Consensus        87 ~~~~~~~~~~~~~~~  101 (176)
                      .+...| .|....|.
T Consensus        94 ~la~sg-~p~~q~Fa  107 (116)
T 2p58_C           94 RLARSQ-DPRIQTFV  107 (116)
T ss_dssp             HHTTCC-CHHHHHHH
T ss_pred             HHHhCC-CHHHHHHH
Confidence            877765 34554443

>2fu4_A Ferric uptake regulation protein; DNA binding domain, helix-turn-helix, DNA binding protein; 1.80A {Escherichia coli}

Probab=80.25  E-value=4.9  Score=21.32  Aligned_cols=59  Identities=17%  Similarity=0.156  Sum_probs=31.6

Q ss_pred             HhhCCCCccHHHHHHHHHHHHhCC-ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC
Q 030489           18 LTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR   77 (176)
Q Consensus        18 ~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   77 (176)
                      +.+.|+..+..- ..++..+...+ ..-.+.++++.+.+.+...+..|....++.+.+.|-
T Consensus         8 l~~~g~~~t~~r-~~IL~~l~~~~~~~~s~~el~~~l~~~~~~is~~TVyR~L~~L~~~Gl   67 (83)
T 2fu4_A            8 LKKAGLKVTLPR-LKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGI   67 (83)
T ss_dssp             HHHTTCCCCHHH-HHHHHHHTSGGGSSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTS
T ss_pred             HHHcCCCcCHHH-HHHHHHHHhCCCCCCCHHHHHHHHHHhCCCCCHhhHHHHHHHHHHCCC
Confidence            445565555433 24444444443 445566666666655545555565556665555553

---

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	176
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	5e-05

>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 = 40.4 bits (93), Expect = 5e-05
 Identities = 26/155 (16%), Positives = 58/155 (37%), Gaps = 20/155 (12%)

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 NISPNIA-------------GRPTEAMQLYDSMLR 148
            + P  A             G+  EA+  Y   +R
Sbjct: 334 -VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR 367

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	176
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.52
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.51
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.51
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.3
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.3
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.26
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.19
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.19
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.13
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.12
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.11
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.09
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.07
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.01
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.95
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.93
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.92
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.92
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.85
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.84
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.8
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.78
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.76
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.75
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.7
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.66
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.63
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.61
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.6
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.57
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.57
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.54
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.49
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.47
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.46
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.41
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.37
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.36
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.31
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.28
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.2
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.14
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	98.02
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.02
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.96
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.88
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.8
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.55
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.46
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.31
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.16
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	96.52
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.28
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	96.16
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.07
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.76
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.45
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	95.37
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.1
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	93.78
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	93.66
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.57
d1mzba_	134	Ferric uptake regulation protein, FUR {Pseudomonas	91.69
d1u9pa1	36	Arc repressor {Salmonella bacteriophage P22 [TaxId	87.05
d1h6pa_	203	TRF2 {Human (Homo sapiens) [TaxId: 9606]}	84.99
d2f6ma1	64	Vacuolar protein sorting-associated protein 23, VP	83.03
d1mzba_	134	Ferric uptake regulation protein, FUR {Pseudomonas	82.66
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	81.66

>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=99.52  E-value=2.1e-12  Score=89.37  Aligned_cols=159  Identities=16%  Similarity=0.223  Sum_probs=76.6

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      ..|++++|...++.....+ +.+...+..+...+.+.|++++|+..|++..+... -+..++..+...+...|++++|.+
T Consensus       215 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~  292 (388)
T d1w3ba_         215 EARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAED  292 (388)
T ss_dssp             TTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             ccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHH
Confidence            3445555555555544432 22444444455555555555555555555444321 134444555555555555555555


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCC
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNG  150 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g  150 (176)
                      .++...... +.+...+..+...+.+.|++++|+..|++..+.  .|+..             |++++|.+.|++..+. 
T Consensus       293 ~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l-  368 (388)
T d1w3ba_         293 CYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI-  368 (388)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT-
T ss_pred             HHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            555554442 224445555555555555555555555554432  22222             5555555555555432 


Q ss_pred             CCCc-HHHHHHHHHHhhccc
Q 030489          151 IMPD-GLLLSTLADYNLQSS  169 (176)
Q Consensus       151 ~~p~-~~~~~~l~~~~~~~g  169 (176)
                       .|+ ...+..+..++.+.|
T Consensus       369 -~P~~~~a~~~lg~~~~~~~  387 (388)
T d1w3ba_         369 -SPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             -CTTCHHHHHHHHHHHHHTC
T ss_pred             -CCCCHHHHHHHHHHHHHcC
Confidence             333 334445555554444

>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=99.51  E-value=2e-12  Score=89.48  Aligned_cols=165  Identities=19%  Similarity=0.195  Sum_probs=140.4

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDAT   82 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   82 (176)
                      ...|++++|...++...+.. +-+..+|..+...+...|++++|+..+........ .+...+..+...+.+.|++++|.
T Consensus       180 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~  257 (388)
T d1w3ba_         180 NAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAI  257 (388)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHH
Confidence            45789999999999988764 33788999999999999999999999999887653 36677888889999999999999


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHC
Q 030489           83 MMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~  149 (176)
                      ..|++..+..+. +..+|..+...+...|++++|.+.++......  |...             |++++|++.|++..+.
T Consensus       258 ~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  334 (388)
T d1w3ba_         258 DTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PTHADSLNNLANIKREQGNIEEAVRLYRKALEV  334 (388)
T ss_dssp             HHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC--CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999999987654 78899999999999999999999999887643  3332             9999999999999864


Q ss_pred             CCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          150 GIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       150 g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                        .|+ ..++..+..++.+.|++++|
T Consensus       335 --~p~~~~~~~~la~~~~~~g~~~~A  358 (388)
T d1w3ba_         335 --FPEFAAAHSNLASVLQQQGKLQEA  358 (388)
T ss_dssp             --CTTCHHHHHHHHHHHHTTTCCHHH
T ss_pred             --CCCCHHHHHHHHHHHHHcCCHHHH
Confidence              455 56788899999999999887

>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=99.51  E-value=2.4e-12  Score=87.88  Aligned_cols=167  Identities=16%  Similarity=0.113  Sum_probs=134.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|.+.|+...+.. |-+..+|..+..++...|++++|+..|.+..+... -+...+..+..+|...|++++|
T Consensus        29 ~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A  106 (323)
T d1fcha_          29 RLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFTNESLQRQA  106 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccc-cccccccccccccccccccccc
Confidence            567899999999999999875 33788999999999999999999999999887643 2677788888999999999999


Q ss_pred             HHHHHHHHhcCC--------------------------------------------------CCcHHHHHHHHHHHHhcC
Q 030489           82 TMMFSKMLEKGP--------------------------------------------------KANVVTYSCLIDGYFKSQ  111 (176)
Q Consensus        82 ~~~~~~~~~~~~--------------------------------------------------~~~~~~~~~l~~~~~~~g  111 (176)
                      .+.+++......                                                  .++..++..+...+...|
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            888877653211                                                  224456777788888999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          112 NMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       112 ~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                      ++++|+..+++.....  |+..             |++++|.+.|++..+.  .|+ ...+..+..+|.+.|+.++|
T Consensus       187 ~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A  259 (323)
T d1fcha_         187 EYDKAVDCFTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREA  259 (323)
T ss_dssp             CHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHhhhhcccccccccc--cccccchhhhhhcccccccchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHHH
Confidence            9999999999887643  3333             9999999999998864  444 55788899999999998876

>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=99.30  E-value=5.6e-11  Score=81.18  Aligned_cols=161  Identities=12%  Similarity=0.052  Sum_probs=128.8

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCC-ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN-RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDD   80 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   80 (176)
                      +.+.+++++|+++++.+.+.+ |-+...|+....++...| ++++|+..++...+.... +..+|+.+...+.+.|++++
T Consensus        53 ~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~~~~l~~~~e  130 (315)
T d2h6fa1          53 LQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDPSQ  130 (315)
T ss_dssp             HHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTT
T ss_pred             HHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHHHHhhccHHH
Confidence            346788999999999999885 337889999999888876 489999999998877543 78889999999999999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC-----------------CChHHHHHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA-----------------GRPTEAMQLY  143 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------------~~~~~a~~~~  143 (176)
                      |++.++++.+..+. +...|..+...+.+.|++++|+..+++..+.+......                 +..++|++.+
T Consensus       131 Al~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~  209 (315)
T d2h6fa1         131 ELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYT  209 (315)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHH
T ss_pred             HHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchhhhhHHhHHHH
Confidence            99999999998765 89999999999999999999999999998765432221                 3467888888


Q ss_pred             HHHHHCCCCCc-HHHHHHHHHHhhc
Q 030489          144 DSMLRNGIMPD-GLLLSTLADYNLQ  167 (176)
Q Consensus       144 ~~m~~~g~~p~-~~~~~~l~~~~~~  167 (176)
                      .+..+.  .|+ ...+..+...+..
T Consensus       210 ~~al~~--~P~~~~~~~~l~~ll~~  232 (315)
T d2h6fa1         210 LEMIKL--VPHNESAWNYLKGILQD  232 (315)
T ss_dssp             HHHHHH--STTCHHHHHHHHHHHTT
T ss_pred             HHHHHh--CCCchHHHHHHHHHHHh
Confidence            888765  444 4455544444433

>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=99.30  E-value=7.4e-10  Score=75.27  Aligned_cols=143  Identities=13%  Similarity=0.111  Sum_probs=117.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-----------------------
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQL-----------------------   58 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-----------------------   58 (176)
                      |...|++++|...|.+..+.. +-+...|..+...|...|++++|++.++.......                       
T Consensus        63 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  141 (323)
T d1fcha_          63 QAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKR  141 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------C
T ss_pred             HHHcCChHHHHHHHHhhhccc-cccccccccccccccccccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchh
Confidence            567899999999999998765 33788899999999999999999999887654211                       


Q ss_pred             ---------------------------CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC
Q 030489           59 ---------------------------KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ  111 (176)
Q Consensus        59 ---------------------------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  111 (176)
                                                 .++..++..+...+...|++++|...|++.....+. +..+|..+..+|.+.|
T Consensus       142 ~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g  220 (323)
T d1fcha_         142 ILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGN  220 (323)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccc-cccchhhhhhcccccc
Confidence                                       113345566777888999999999999999887654 7889999999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHH
Q 030489          112 NMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLR  148 (176)
Q Consensus       112 ~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~  148 (176)
                      ++++|.+.|++..+.  .|+..             |++++|++.|++..+
T Consensus       221 ~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         221 QSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999999998774  34433             999999999998875

>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=99.26  E-value=1.7e-09  Score=71.15  Aligned_cols=120  Identities=12%  Similarity=-0.056  Sum_probs=68.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.+.|++++|++.|++..+.. |-+..+|+.+..++.+.|++++|+..|++..+.... +..++..+..++...|++++|
T Consensus        47 y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A  124 (259)
T d1xnfa_          47 YDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLA  124 (259)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHH
Confidence            345666677777776666553 225666666666666777777777777666654322 344556666666666777777


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                      .+.|+...+..+. +......+..++.+.+..+....+.....
T Consensus       125 ~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (259)
T d1xnfa_         125 QDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFE  166 (259)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence            7666666655432 44444344444444444444444444333

>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=99.19  E-value=1.2e-09  Score=74.06  Aligned_cols=162  Identities=14%  Similarity=0.243  Sum_probs=91.2

Q ss_pred             ChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHH
Q 030489            7 HLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFS   86 (176)
Q Consensus         7 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~   86 (176)
                      ..++|..+|++..+...+.+...|...+....+.|++++|..+|+.+.+........+|...+....+.|+.+.|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            34566667766665444445566666666667777777777777776654322223456666666666777777777777


Q ss_pred             HHHhcCCCCcHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCC-C
Q 030489           87 KMLEKGPKANVVTYSCLIDG-YFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNG-I  151 (176)
Q Consensus        87 ~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g-~  151 (176)
                      ...+.+.. +...|...... +...|+.+.|..+|+.+...  .|+..             |+.++|..+|++..... .
T Consensus       159 ~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         159 KAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            76655433 33333333322 23346666677777666553  22222             66777777776665432 2


Q ss_pred             CCc--HHHHHHHHHHhhcccCc
Q 030489          152 MPD--GLLLSTLADYNLQSSGS  171 (176)
Q Consensus       152 ~p~--~~~~~~l~~~~~~~g~~  171 (176)
                      .|+  ...|...+..-...|+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~  257 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDL  257 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCH
Confidence            332  22455555544455543

>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=99.19  E-value=3e-09  Score=72.12  Aligned_cols=144  Identities=9%  Similarity=0.020  Sum_probs=115.6

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHH-HHhcCCHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDA-FCKEGRMDDA   81 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~~~~~~a   81 (176)
                      .+.|+++.|..+|+.+.+..+.....+|...+....+.|+.++|.++|....+.+.. +...|...... +...|+.+.|
T Consensus       110 ~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a  188 (308)
T d2onda1         110 ESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             HHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHH
T ss_pred             HhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHH
Confidence            357899999999999988754444668999999999999999999999999876433 44444443333 3456899999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCCC--------------CChHHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI-SPNIA--------------GRPTEAMQLYDSM  146 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~--------------~~~~~a~~~~~~m  146 (176)
                      ..+|+.+.+..+ .+...|...+..+.+.|+++.|..+|++...... .|...              |+.+.+..+++++
T Consensus       189 ~~i~e~~l~~~p-~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~  267 (308)
T d2onda1         189 FKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhh-hhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999998744 4788999999999999999999999999877543 33322              9999999999988


Q ss_pred             HH
Q 030489          147 LR  148 (176)
Q Consensus       147 ~~  148 (176)
                      .+
T Consensus       268 ~~  269 (308)
T d2onda1         268 FT  269 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>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=99.13  E-value=2.2e-09  Score=65.89  Aligned_cols=115  Identities=12%  Similarity=0.098  Sum_probs=81.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.+.|++++|+..|++..+.. +.+...|..+..+|...|++++|++.|+...+.. +-+..+|..+..++...|++++|
T Consensus        20 ~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~eA   97 (159)
T d1a17a_          20 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAA   97 (159)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHHHH
Confidence            457788888888888888765 3477888888888888888888888888887764 23667788888888888888888


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHH--HhcCCHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGY--FKSQNMKSAFDV  119 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~g~~~~a~~~  119 (176)
                      ...+++.....+. +...+..+..+.  ...+.++++...
T Consensus        98 ~~~~~~a~~~~p~-~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          98 LRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            8888888877543 555554443332  233344455443

>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=99.12  E-value=2e-09  Score=62.65  Aligned_cols=90  Identities=19%  Similarity=0.148  Sum_probs=48.3

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 030489           34 ICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM  113 (176)
Q Consensus        34 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  113 (176)
                      ...+.+.|++++|+..|++..+.. +-+...|..+..+|.+.|++++|+..++...+.++. +...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHccCH
Confidence            344555555555555555555443 224445555555555555555555555555555433 555555555555555555


Q ss_pred             HHHHHHHHHHHH
Q 030489          114 KSAFDVYEEMCE  125 (176)
Q Consensus       114 ~~a~~~~~~m~~  125 (176)
                      ++|+..|++..+
T Consensus        88 ~~A~~~~~~a~~   99 (117)
T d1elwa_          88 EEAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHH
Confidence            555555555543

>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=99.11  E-value=3.9e-09  Score=66.85  Aligned_cols=138  Identities=15%  Similarity=0.095  Sum_probs=104.7

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +...|+++.|++.|.++    .+|+..+|..+..+|...|++++|++.|++..+.... +...|..+..++.+.|++++|
T Consensus        15 ~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHHHH
Confidence            35678999999999764    2567888999999999999999999999998887533 677888889999999999999


Q ss_pred             HHHHHHHHhcCCC--------------C-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCCCChHHHHHHHHH
Q 030489           82 TMMFSKMLEKGPK--------------A-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIAGRPTEAMQLYDS  145 (176)
Q Consensus        82 ~~~~~~~~~~~~~--------------~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~~a~~~~~~  145 (176)
                      .+.|++.......              + ...++..+..+|.+.|++++|.+.++........+ ..+..+.|+..+.+
T Consensus        90 ~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~-~~~~~~~Al~~~~~  167 (192)
T d1hh8a_          90 IKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP-RHSKIDKAMECVWK  167 (192)
T ss_dssp             HHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG-GGGHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc-chHHHHHHHHHHHh
Confidence            9999987653111              1 12456677888999999999999998876543332 12455666655543

>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=99.09  E-value=3.5e-09  Score=67.05  Aligned_cols=99  Identities=11%  Similarity=0.028  Sum_probs=63.5

Q ss_pred             ccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHH
Q 030489           25 PDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLI  104 (176)
Q Consensus        25 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  104 (176)
                      |+...+......+.+.|++++|+..|.+..... +-+...|..+..+|.+.|++++|+..|+..++..+. +..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHHH
Confidence            455556666666667777777777776665543 225556666666677777777777777766665433 566666677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 030489          105 DGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus       105 ~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      .+|.+.|++++|+..|++...
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            777777777777777766543

>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=99.07  E-value=2.8e-08  Score=62.78  Aligned_cols=135  Identities=11%  Similarity=0.042  Sum_probs=106.5

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (176)
                      ..|+. ...+...|++++|++.|.+.    .+|+..+|..+..+|.+.|++++|++.|++.++.++. +...|..+..+|
T Consensus         7 ~l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~   80 (192)
T d1hh8a_           7 SLWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLY   80 (192)
T ss_dssp             HHHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHH
Confidence            34554 45578999999999999764    3567888999999999999999999999999998765 888999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCCC---------------------------CChHHHHHHHHHHHHCCCCCcHHHHHH
Q 030489          108 FKSQNMKSAFDVYEEMCENNISPNIA---------------------------GRPTEAMQLYDSMLRNGIMPDGLLLST  160 (176)
Q Consensus       108 ~~~g~~~~a~~~~~~m~~~~~~~~~~---------------------------~~~~~a~~~~~~m~~~g~~p~~~~~~~  160 (176)
                      .+.|++++|++.|++...........                           |++++|.+.+....+....|.......
T Consensus        81 ~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~  160 (192)
T d1hh8a_          81 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDK  160 (192)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHH
T ss_pred             HhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHH
Confidence            99999999999999876532111100                           999999999999987666665656665


Q ss_pred             HHHHhhcc
Q 030489          161 LADYNLQS  168 (176)
Q Consensus       161 l~~~~~~~  168 (176)
                      .+..+.+.
T Consensus       161 Al~~~~~~  168 (192)
T d1hh8a_         161 AMECVWKQ  168 (192)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHhh
Confidence            55555443

>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=99.01  E-value=2.1e-08  Score=58.20  Aligned_cols=99  Identities=13%  Similarity=0.108  Sum_probs=85.3

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|+.+|++..+.. |.+...|..+..++.+.|++++|+..+....+.+. .+...|..+..++...|++++|
T Consensus        13 ~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~g~~~~~~~~~~~A   90 (117)
T d1elwa_          13 ALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAALEFLNRFEEA   90 (117)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhcc-chhhHHHHHHHHHHHccCHHHH
Confidence            567899999999999999875 44889999999999999999999999999988753 4888899999999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHH
Q 030489           82 TMMFSKMLEKGPKANVVTYSCL  103 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l  103 (176)
                      +..|++..+..+. +...+..+
T Consensus        91 ~~~~~~a~~~~p~-~~~~~~~l  111 (117)
T d1elwa_          91 KRTYEEGLKHEAN-NPQLKEGL  111 (117)
T ss_dssp             HHHHHHHHTTCTT-CHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHH
Confidence            9999999987544 55555444

>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=98.95  E-value=3e-08  Score=65.01  Aligned_cols=121  Identities=16%  Similarity=0.040  Sum_probs=101.2

Q ss_pred             hCChhHHHHHHHHHhhCCC-Cc--cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            5 ECHLDAALKLFGQLTDRGL-EP--DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~-~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      ..+.+.|+.-++++..... .+  ...+|..+..+|.+.|++++|++.|++..+... -+..+|+.+..++.+.|++++|
T Consensus        12 ~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p-~~~~a~~~lg~~~~~~g~~~~A   90 (259)
T d1xnfa_          12 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDAA   90 (259)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCC-CCHHHHhhhchHHHHHHHHHHh
Confidence            3456778888888876532 11  345788888999999999999999999987643 3778899999999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  127 (176)
                      .+.|++..+..+. +..++..+..+|...|++++|...|+...+..
T Consensus        91 ~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~  135 (259)
T d1xnfa_          91 YEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD  135 (259)
T ss_dssp             HHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhhhhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc
Confidence            9999999988655 77889999999999999999999999987654

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.93  E-value=4.1e-08  Score=60.03  Aligned_cols=96  Identities=14%  Similarity=0.150  Sum_probs=84.6

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 030489           30 YNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFK  109 (176)
Q Consensus        30 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  109 (176)
                      +......|.+.|++++|+..|.+..+... -+...|..+..+|...|++++|...|++.++..+. +..+|..+..+|..
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~   90 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccch-hhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHH
Confidence            34456678899999999999999998753 37788889999999999999999999999998755 88999999999999


Q ss_pred             cCCHHHHHHHHHHHHHCC
Q 030489          110 SQNMKSAFDVYEEMCENN  127 (176)
Q Consensus       110 ~g~~~~a~~~~~~m~~~~  127 (176)
                      .|++++|...+++.....
T Consensus        91 ~g~~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVK  108 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHS
T ss_pred             cCCHHHHHHHHHHHHHcC
Confidence            999999999999988753

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.92  E-value=2.2e-08  Score=57.63  Aligned_cols=91  Identities=14%  Similarity=0.074  Sum_probs=80.2

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 030489           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKS  110 (176)
Q Consensus        31 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  110 (176)
                      ..+...+.+.|++++|+..|++....... +...|..+..++.+.|++++|+..|++..+..+. +..+|..+...|...
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            34566788999999999999998887533 6888999999999999999999999999988755 889999999999999


Q ss_pred             CCHHHHHHHHHHH
Q 030489          111 QNMKSAFDVYEEM  123 (176)
Q Consensus       111 g~~~~a~~~~~~m  123 (176)
                      |++++|.+.+++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            9999999999875

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.92  E-value=3.2e-09  Score=67.26  Aligned_cols=88  Identities=11%  Similarity=0.084  Sum_probs=77.8

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      |.+.|++++|+..|.+..+.. |.+...|+.+..+|.+.|++++|+..|+...+... -+..+|..+..+|.+.|++++|
T Consensus        14 ~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p-~~~~a~~~lg~~~~~l~~~~~A   91 (201)
T d2c2la1          14 LFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQCQLEMESYDEA   91 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHH
Confidence            568999999999999998875 45899999999999999999999999999987642 2677899999999999999999


Q ss_pred             HHHHHHHHhc
Q 030489           82 TMMFSKMLEK   91 (176)
Q Consensus        82 ~~~~~~~~~~   91 (176)
                      ...|++..+.
T Consensus        92 ~~~~~~al~l  101 (201)
T d2c2la1          92 IANLQRAYSL  101 (201)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999988753

>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=98.85  E-value=7.6e-08  Score=65.36  Aligned_cols=139  Identities=9%  Similarity=0.030  Sum_probs=112.5

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC-CHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG-RMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      ...++.+-..+.+.+.+++|+++++...+.+.. +...|+....++...| ++++|...++...+..+. +..+|+.+..
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            567778888888999999999999999987533 6677888888888876 599999999999988766 8999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHCCCCC-cHHHHHHHHHHhhcccCc
Q 030489          106 GYFKSQNMKSAFDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRNGIMP-DGLLLSTLADYNLQSSGS  171 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~  171 (176)
                      .+.+.|++++|+..++++.+..  |...             +++++|++.++++.+.  .| +...|+.+...+.+.+..
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d--p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD--AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhh--hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHcccc
Confidence            9999999999999999998753  3333             9999999999999975  44 345566555555554443

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.84  E-value=2e-08  Score=57.86  Aligned_cols=86  Identities=10%  Similarity=0.083  Sum_probs=76.1

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   81 (176)
                      +.+.|++++|...|++..+.. |-+..+|..+..++.+.|++++|+..|++..+.. +.+...+..+..+|...|++++|
T Consensus        26 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~~A  103 (112)
T d1hxia_          26 MLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAA  103 (112)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHHHH
Confidence            457899999999999998875 3379999999999999999999999999988865 33688899999999999999999


Q ss_pred             HHHHHHHH
Q 030489           82 TMMFSKML   89 (176)
Q Consensus        82 ~~~~~~~~   89 (176)
                      .+.+++..
T Consensus       104 ~~~l~~~l  111 (112)
T d1hxia_         104 LASLRAWL  111 (112)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998763

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.80  E-value=1.1e-07  Score=63.68  Aligned_cols=148  Identities=14%  Similarity=0.003  Sum_probs=108.4

Q ss_pred             chhhCChhHHHHHHHHHhhC----CCCc-cHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CC-CcChhhHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR----GLEP-DIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QL-KPNSITFTILIDA   71 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~~~~~ll~~   71 (176)
                      |-..|++++|.+.|.+..+.    +-++ ...+|+.+..+|.+.|++++|+..+++....    |. .....++..+...
T Consensus        47 y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~  126 (290)
T d1qqea_          47 YRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEI  126 (290)
T ss_dssp             HHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHh
Confidence            45678999999999988653    2122 3468899999999999999999999876542    11 1123455566666


Q ss_pred             HH-hcCCHHHHHHHHHHHHhc----CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------
Q 030489           72 FC-KEGRMDDATMMFSKMLEK----GPKA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------  133 (176)
Q Consensus        72 ~~-~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------  133 (176)
                      |. ..|++++|.+.+++..+.    +.++ ...++..+...|.+.|++++|...|++...........            
T Consensus       127 ~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (290)
T d1qqea_         127 LENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKG  206 (290)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHH
Confidence            64 469999999999887542    2111 24568888999999999999999999987654332221            


Q ss_pred             ------CChHHHHHHHHHHHHC
Q 030489          134 ------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus       134 ------~~~~~a~~~~~~m~~~  149 (176)
                            ++++.|...+++..+.
T Consensus       207 ~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         207 LCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHhccHHHHHHHHHHHHHh
Confidence                  8999999999988754

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=3.8e-08  Score=57.51  Aligned_cols=95  Identities=12%  Similarity=0.145  Sum_probs=58.4

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCc-HHHHHHHHHH
Q 030489           31 NTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGR---MDDATMMFSKMLEKGPKAN-VVTYSCLIDG  106 (176)
Q Consensus        31 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~  106 (176)
                      ..+++.+...+++++|++.|+.....+ +.+..++..+..++.+.++   +++|+.+|+++...+..|+ ..+|..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            345666666677777777777666654 2355666666666665443   3456777776665543333 2356666677


Q ss_pred             HHhcCCHHHHHHHHHHHHHC
Q 030489          107 YFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       107 ~~~~g~~~~a~~~~~~m~~~  126 (176)
                      |.+.|++++|++.|++..+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHh
Confidence            77777777777777766653

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.76  E-value=3.3e-07  Score=56.55  Aligned_cols=108  Identities=15%  Similarity=0.076  Sum_probs=77.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCCC-c-------------cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLE-P-------------DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI   67 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~-~-------------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   67 (176)
                      +.+.|++++|++.|.+....-.. +             -..+|+.+..+|.+.|++++|+..++...... +.++.++..
T Consensus        23 ~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~  101 (170)
T d1p5qa1          23 YFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSR  101 (170)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHH
Confidence            45789999999999887754111 1             12456667778888888888888888887764 237777888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC
Q 030489           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQ  111 (176)
Q Consensus        68 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  111 (176)
                      +..+|...|++++|...|++..+.++. +..+...+-....+.+
T Consensus       102 ~g~~~~~~g~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~~~~  144 (170)
T d1p5qa1         102 RGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIR  144 (170)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHH
Confidence            888888888888888888888877543 5666555555544433

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.75  E-value=8e-08  Score=56.10  Aligned_cols=92  Identities=15%  Similarity=0.030  Sum_probs=75.6

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCCh---hHHHHHHHHHHhCCCCcC-hhhHHHHHHHHHhcCC
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRL---DEAVQLFEKLTCVQLKPN-SITFTILIDAFCKEGR   77 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~---~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~   77 (176)
                      +...+++++|.+.|+...+.+ +.+..++..+..++.+.++.   ++|+.+|++.......|+ ..++..+..+|.+.|+
T Consensus         9 ~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~~g~   87 (122)
T d1nzna_           9 LVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKE   87 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHhh
Confidence            356778999999999999876 45889999999999876654   579999999887654444 3467888999999999


Q ss_pred             HHHHHHHHHHHHhcCCC
Q 030489           78 MDDATMMFSKMLEKGPK   94 (176)
Q Consensus        78 ~~~a~~~~~~~~~~~~~   94 (176)
                      +++|.+.|++..+..+.
T Consensus        88 ~~~A~~~~~~aL~~~P~  104 (122)
T d1nzna_          88 YEKALKYVRGLLQTEPQ  104 (122)
T ss_dssp             HHHHHHHHHHHHHHCTT
T ss_pred             hHHHHHHHHHHHHhCcC
Confidence            99999999999987643

>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=98.70  E-value=1.4e-06  Score=58.75  Aligned_cols=125  Identities=10%  Similarity=-0.028  Sum_probs=87.5

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCcc----HHHHHHHHHHHHhCCChhHHHHHHHHHHhCC----CCc-ChhhHHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPD----IITYNTIICGYCSLNRLDEAVQLFEKLTCVQ----LKP-NSITFTILIDAF   72 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~----~~~-~~~~~~~ll~~~   72 (176)
                      +...|++++|++++++..+.....+    ...+..+..++...|++++|+..|++..+..    ..+ ...++..+...+
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            4578999999999999887632222    3467778889999999999999998876431    111 123455666778


Q ss_pred             HhcCCHHHHHHHHHHHHhc----CCC--C-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           73 CKEGRMDDATMMFSKMLEK----GPK--A-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        73 ~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      ...|++..+...+.+....    ...  + ....+..+...+...|+++.+...+......
T Consensus       102 ~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~  162 (366)
T d1hz4a_         102 FAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEV  162 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHH
Confidence            8889999888888766531    111  1 1234555667788888888888888877653

>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=98.66  E-value=1.5e-07  Score=55.36  Aligned_cols=92  Identities=17%  Similarity=0.291  Sum_probs=48.3

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc------HHHHHHHHH
Q 030489           32 TIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKAN------VVTYSCLID  105 (176)
Q Consensus        32 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~  105 (176)
                      .+...+.+.|++++|+..|.+..+.+. .+..++..+..+|.+.|++++|.+.+++.++......      ..+|..+..
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            445555666666666666666555432 2455555566666666666666666666554321100      123444444


Q ss_pred             HHHhcCCHHHHHHHHHHHH
Q 030489          106 GYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~  124 (176)
                      .+...+++++|+..|++..
T Consensus        88 ~~~~~~~~~~A~~~~~kal  106 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSL  106 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHH
Confidence            5555555555555555443

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.63  E-value=1e-06  Score=54.27  Aligned_cols=100  Identities=12%  Similarity=0.007  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCC-c-------------ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK-P-------------NSITFTILIDAFCKEGRMDDATMMFSKMLEKG   92 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~-------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   92 (176)
                      ...+......+.+.|++++|+..|.+....-.. +             -..+|+.+..+|.+.|++++|+..++..++.+
T Consensus        13 a~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~   92 (170)
T d1p5qa1          13 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD   92 (170)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc
Confidence            345556677899999999999999887653111 1             12456667888999999999999999999987


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 030489           93 PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus        93 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  127 (176)
                      +. ++.+|..+..+|...|++++|+..|++..+.+
T Consensus        93 p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          93 SN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             TT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            54 89999999999999999999999999998753

>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=98.61  E-value=9.5e-07  Score=53.46  Aligned_cols=89  Identities=17%  Similarity=0.089  Sum_probs=42.9

Q ss_pred             chhhCChhHHHHHHHHHhhCCC----Ccc-----------HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGL----EPD-----------IITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFT   66 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~----~~~-----------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~   66 (176)
                      +.+.|++++|+..|.+....-.    .++           ..+|..+..+|.+.|++++|+..+....+.. +.+..+|.
T Consensus        27 ~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~  105 (153)
T d2fbna1          27 FFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALY  105 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhH
Confidence            3467888888888877664310    001           1233334444444444444444444444332 12344444


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhc
Q 030489           67 ILIDAFCKEGRMDDATMMFSKMLEK   91 (176)
Q Consensus        67 ~ll~~~~~~~~~~~a~~~~~~~~~~   91 (176)
                      .+..++...|++++|...|+...+.
T Consensus       106 ~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1         106 KLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4444444444444444444444444

>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=98.60  E-value=7.4e-07  Score=54.78  Aligned_cols=104  Identities=13%  Similarity=0.064  Sum_probs=59.9

Q ss_pred             chhhCChhHHHHHHHHHhhCC--------------C-CccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHH
Q 030489            2 LIKECHLDAALKLFGQLTDRG--------------L-EPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFT   66 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~--------------~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~   66 (176)
                      +.+.|++++|++.|.+..+..              . +.....|..+..++.+.|++++|+..+.+..+... .+...|.
T Consensus        37 ~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p-~~~~a~~  115 (169)
T d1ihga1          37 FFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP-SNTKALY  115 (169)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhh-hhhhHHH
Confidence            346778888888887664310              0 11334455556666666666666666666665432 2555566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 030489           67 ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGY  107 (176)
Q Consensus        67 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  107 (176)
                      .+..++.+.|++++|.+.|+...+..+. +..+...+..+.
T Consensus       116 ~~g~~~~~l~~~~~A~~~~~~al~l~p~-n~~~~~~l~~~~  155 (169)
T d1ihga1         116 RRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVK  155 (169)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             hHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            6666666666666666666666665433 444444444433

>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=98.57  E-value=4.9e-07  Score=53.04  Aligned_cols=90  Identities=18%  Similarity=0.259  Sum_probs=73.4

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCC-cC-----hhhHHHHHHHHHhc
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLK-PN-----SITFTILIDAFCKE   75 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~-----~~~~~~ll~~~~~~   75 (176)
                      |.+.|++++|++.|.+..+.+ +.+..+|..+..+|.+.|++++|++.+++..+.... +.     ..+|..+...+...
T Consensus        14 ~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~~~~   92 (128)
T d1elra_          14 AYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFKE   92 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHh
Confidence            567899999999999999875 448899999999999999999999999998763211 11     23566677788889


Q ss_pred             CCHHHHHHHHHHHHhcC
Q 030489           76 GRMDDATMMFSKMLEKG   92 (176)
Q Consensus        76 ~~~~~a~~~~~~~~~~~   92 (176)
                      +++++|.+.|++.....
T Consensus        93 ~~~~~A~~~~~kal~~~  109 (128)
T d1elra_          93 EKYKDAIHFYNKSLAEH  109 (128)
T ss_dssp             TCHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHhcC
Confidence            99999999999887654

>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=98.57  E-value=3.9e-06  Score=50.65  Aligned_cols=98  Identities=13%  Similarity=0.001  Sum_probs=80.3

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCC----Cc-----------ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 030489           28 ITYNTIICGYCSLNRLDEAVQLFEKLTCVQL----KP-----------NSITFTILIDAFCKEGRMDDATMMFSKMLEKG   92 (176)
Q Consensus        28 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~----~~-----------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   92 (176)
                      ..+..-...+.+.|++.+|+..|.+....-.    .+           ...+|..+..+|.+.|++++|++.++...+.+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~   97 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID   97 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc
Confidence            3455566778899999999999998775311    11           12456778888999999999999999999887


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           93 PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        93 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +. +..+|..+..+|...|++++|+..|++..+.
T Consensus        98 p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          98 KN-NVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             TT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            54 8999999999999999999999999998764

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.54  E-value=1.1e-06  Score=59.79  Aligned_cols=109  Identities=7%  Similarity=-0.028  Sum_probs=84.4

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCC--hhHHHHHHHHHHhCCCCcChhhHH-HHHHHHHhcCCHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNR--LDEAVQLFEKLTCVQLKPNSITFT-ILIDAFCKEGRMDD   80 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~--~~~a~~~~~~m~~~~~~~~~~~~~-~ll~~~~~~~~~~~   80 (176)
                      ..|++++|+.+++...+.. +.+...|..+..++...+.  +++++..+....+.... +...+. .+...+...+..+.
T Consensus        85 ~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHH
Confidence            4566889999999998775 4478888888777777664  78999999998876433 455544 44567788899999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKS  115 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  115 (176)
                      |...++...+.++. +...|+.+...+.+.|++++
T Consensus       163 Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         163 ELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             HHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHH
Confidence            99999999988765 88889888888888776543

>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=98.49  E-value=2.5e-07  Score=61.17  Aligned_cols=121  Identities=13%  Similarity=0.045  Sum_probs=84.1

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC-hhhHHHHHHHHHhcCCHHHH
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN-SITFTILIDAFCKEGRMDDA   81 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a   81 (176)
                      .+.|++++|+..+++..+.. |-+...+..+...++..|++++|++.++...+.  .|+ ...+..+...+...+..+++
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHHH
Confidence            46899999999999999885 448999999999999999999999999999876  343 34444444444333333322


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           82 TMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      ..-.......+.+++...+......+...|++++|.+.+++..+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            221111111122334444555567788899999999999998764

>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=98.47  E-value=3e-06  Score=51.99  Aligned_cols=109  Identities=17%  Similarity=0.147  Sum_probs=76.2

Q ss_pred             chhhCChhHHHHHHHHHhhC---CCCc-----------cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR---GLEP-----------DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTI   67 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~---~~~~-----------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~   67 (176)
                      +.+.|++++|...|......   ...+           ...+|+.+..+|.+.|++++|+..++...+.. +.+...|..
T Consensus        25 ~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~  103 (168)
T d1kt1a1          25 YFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYR  103 (168)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHH
Confidence            45789999999999876532   1111           12345566777888888888888888877754 346777888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC
Q 030489           68 LIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQN  112 (176)
Q Consensus        68 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  112 (176)
                      +..++...|++++|...|++..+..+. +..+...+-....+.+.
T Consensus       104 ~~~~~~~l~~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~~~~~  147 (168)
T d1kt1a1         104 RGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQIFMCQKKAKE  147 (168)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHh
Confidence            888888888888888888888876543 55555555555444443

>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=98.46  E-value=7.9e-06  Score=50.64  Aligned_cols=108  Identities=17%  Similarity=0.204  Sum_probs=78.5

Q ss_pred             HHHHhCCChhHHHHHHHHHHhC--CCC-c------------------ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 030489           35 CGYCSLNRLDEAVQLFEKLTCV--QLK-P------------------NSITFTILIDAFCKEGRMDDATMMFSKMLEKGP   93 (176)
Q Consensus        35 ~~~~~~~~~~~a~~~~~~m~~~--~~~-~------------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~   93 (176)
                      ......|++++|.+.|.+....  |.. +                  ....+..+..++.+.|++++|...++...+..+
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            4556667777777666665542  111 0                  124567788899999999999999999999875


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCCCCChHHHHHHHHHHHH
Q 030489           94 KANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE-----NNISPNIAGRPTEAMQLYDSMLR  148 (176)
Q Consensus        94 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~~~~a~~~~~~m~~  148 (176)
                      . +...|..++.+|.+.|++.+|++.|+++..     .|+.|.     .+...++..+..
T Consensus        99 ~-~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~-----~~l~~l~~~il~  152 (179)
T d2ff4a2          99 Y-REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG-----PTLRALNERILR  152 (179)
T ss_dssp             T-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC-----HHHHHHHHHHHT
T ss_pred             c-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcC-----HHHHHHHHHHHh
Confidence            4 999999999999999999999999998743     455554     233445555543

>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=98.41  E-value=4.4e-06  Score=51.82  Aligned_cols=96  Identities=15%  Similarity=0.141  Sum_probs=79.8

Q ss_pred             hhhCChhHHHHHHHHHhhC--CCCc-------------------cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcC
Q 030489            3 IKECHLDAALKLFGQLTDR--GLEP-------------------DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPN   61 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~--~~~~-------------------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~   61 (176)
                      ...|++++|.+.|.+....  |...                   ....+..+..++.+.|++++|+..++++.+.. +-+
T Consensus        22 ~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~  100 (179)
T d2ff4a2          22 AAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEH-PYR  100 (179)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTC
T ss_pred             HHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-Ccc
Confidence            4679999999999998764  3211                   11457889999999999999999999998875 348


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHH-----hcCCCCcHHH
Q 030489           62 SITFTILIDAFCKEGRMDDATMMFSKML-----EKGPKANVVT   99 (176)
Q Consensus        62 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~   99 (176)
                      ...|..++.++.+.|+..+|.+.|++..     +.|+.|...+
T Consensus       101 e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2         101 EPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            8999999999999999999999999874     4689988765

>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=98.37  E-value=7.2e-06  Score=50.21  Aligned_cols=96  Identities=14%  Similarity=0.056  Sum_probs=78.0

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhC--------------CC-CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 030489           30 YNTIICGYCSLNRLDEAVQLFEKLTCV--------------QL-KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPK   94 (176)
Q Consensus        30 ~~~ll~~~~~~~~~~~a~~~~~~m~~~--------------~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~   94 (176)
                      +......+.+.|++++|++.|.+..+.              .+ +.+...+..+..++.+.|++++|+..+.+.++..+.
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~  109 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS  109 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhh
Confidence            445666788999999999999776431              01 123445667788899999999999999999988755


Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           95 ANVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        95 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                       +..+|..+..+|...|++++|+..|++..+.
T Consensus       110 -~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1         110 -NTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -hhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence             8899999999999999999999999998774

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.36  E-value=1.4e-05  Score=53.20  Aligned_cols=127  Identities=11%  Similarity=0.006  Sum_probs=89.9

Q ss_pred             chhhCChhHHHHHHHHHhhC----C-CCccHHHHHHHHHHHH-hCCChhHHHHHHHHHHh----CCCCc-ChhhHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDR----G-LEPDIITYNTIICGYC-SLNRLDEAVQLFEKLTC----VQLKP-NSITFTILID   70 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~ll~~~~-~~~~~~~a~~~~~~m~~----~~~~~-~~~~~~~ll~   70 (176)
                      |.+.|++++|.+.+++..+.    | ......++..+...|. ..|++++|++.|.+...    .+.++ -..++..+..
T Consensus        87 y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~  166 (290)
T d1qqea_          87 FKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCAD  166 (290)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHH
Confidence            55789999999999876543    2 1112456667777775 46999999999987653    22222 2345777889


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCcH------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 030489           71 AFCKEGRMDDATMMFSKMLEKGPKANV------VTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        71 ~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  128 (176)
                      .+.+.|++++|.+.|++..........      ..+...+..+...|+++.|...+++..+...
T Consensus       167 ~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~  230 (290)
T d1qqea_         167 LKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDP  230 (290)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC--
T ss_pred             HHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            999999999999999998865332211      2244556677788999999999998876543

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.31  E-value=1.1e-05  Score=49.36  Aligned_cols=100  Identities=16%  Similarity=0.040  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhC---CCCc-----------ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 030489           27 IITYNTIICGYCSLNRLDEAVQLFEKLTCV---QLKP-----------NSITFTILIDAFCKEGRMDDATMMFSKMLEKG   92 (176)
Q Consensus        27 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~-----------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   92 (176)
                      ...+......+.+.|++.+|+..|......   ...+           ...+|+.+..+|.+.|++++|+..++...+.+
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~   94 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD   94 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc
Confidence            455667788899999999999999876532   1111           12335557778899999999999999999886


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 030489           93 PKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus        93 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  127 (176)
                      +. +..+|..+..+|...|++++|...|++....+
T Consensus        95 p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          95 SA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             TT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             cc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            54 89999999999999999999999999998753

>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=98.28  E-value=5.8e-06  Score=49.41  Aligned_cols=116  Identities=12%  Similarity=0.053  Sum_probs=77.2

Q ss_pred             chhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCC----------ChhHHHHHHHHHHhCCCCcChhhHHHHHHH
Q 030489            2 LIKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLN----------RLDEAVQLFEKLTCVQLKPNSITFTILIDA   71 (176)
Q Consensus         2 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~   71 (176)
                      |-+.+.+++|++.|+...+.. |.+..++..+..++...+          .+++|+..|++..+... -+..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P-~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP-KKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcc-hhhHHHhhHHHH
Confidence            446778999999999998875 447888888888887543          45678888888776542 266777777777


Q ss_pred             HHhcCC-----------HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 030489           72 FCKEGR-----------MDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENN  127 (176)
Q Consensus        72 ~~~~~~-----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  127 (176)
                      |...|+           +++|.+.|++..+..  |+...|...+..+      .++.+++.+..+.|
T Consensus        85 y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~--P~~~~~~~~L~~~------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1          85 YTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ--PDNTHYLKSLEMT------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             HHHcccchhhHHHHHHhHHHhhhhhhcccccC--CCHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence            766543           567777777777654  4444444433333      34555555555444

>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=98.20  E-value=0.00013  Score=48.69  Aligned_cols=172  Identities=15%  Similarity=0.084  Sum_probs=114.5

Q ss_pred             hhhCChhHHHHHHHHHhhC----CCC--c-cHHHHHHHHHHHHhCCChhHHHHHHHHHHhC----CCCcChhhHHHHHHH
Q 030489            3 IKECHLDAALKLFGQLTDR----GLE--P-DIITYNTIICGYCSLNRLDEAVQLFEKLTCV----QLKPNSITFTILIDA   71 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~~~ll~~   71 (176)
                      ...|++..+...+......    +.+  + ....+..+...+...|+++.+...+......    +......++..+...
T Consensus       102 ~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (366)
T d1hz4a_         102 FAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQC  181 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHH
Confidence            4567788888877765431    111  1 2345566778888999999999999877653    222234455556677


Q ss_pred             HHhcCCHHHHHHHHHHHHhc----CCCC--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC------------
Q 030489           72 FCKEGRMDDATMMFSKMLEK----GPKA--NVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNISPNIA------------  133 (176)
Q Consensus        72 ~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------  133 (176)
                      +...+....+...+.+....    +..+  ....+..+...+...|++++|...+++........+..            
T Consensus       182 ~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~  261 (366)
T d1hz4a_         182 SLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQ  261 (366)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHH
Confidence            78888988888888766532    1111  12345666778888899999999988765443322222            


Q ss_pred             ---CChHHHHHHHHHHH----HCCCCCc-HHHHHHHHHHhhcccCcccc
Q 030489          134 ---GRPTEAMQLYDSML----RNGIMPD-GLLLSTLADYNLQSSGSQEH  174 (176)
Q Consensus       134 ---~~~~~a~~~~~~m~----~~g~~p~-~~~~~~l~~~~~~~g~~~~A  174 (176)
                         |++++|...+++..    ..+..|+ ...+..+...+.+.|++++|
T Consensus       262 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  310 (366)
T d1hz4a_         262 ILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDA  310 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHH
Confidence               89999999998876    2344444 34667777888888888776

>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=98.14  E-value=3.7e-06  Score=50.32  Aligned_cols=74  Identities=14%  Similarity=0.091  Sum_probs=57.3

Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh----------cCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 030489           37 YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----------EGRMDDATMMFSKMLEKGPKANVVTYSCLIDG  106 (176)
Q Consensus        37 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  106 (176)
                      |-+.+.+++|++.|+...+.. +-+..++..+-.++..          .+.+++|+..|++..+.++. +..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHH
Confidence            445667999999999998875 3367777777777764          34568899999999988765 88899999888


Q ss_pred             HHhcCC
Q 030489          107 YFKSQN  112 (176)
Q Consensus       107 ~~~~g~  112 (176)
                      |...|+
T Consensus        85 y~~~g~   90 (145)
T d1zu2a1          85 YTSFAF   90 (145)
T ss_dssp             HHHHHH
T ss_pred             HHHccc
Confidence            877653

>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=98.02  E-value=0.00017  Score=43.23  Aligned_cols=99  Identities=13%  Similarity=0.047  Sum_probs=72.8

Q ss_pred             HHHHHHH--HHHHHhCCChhHHHHHHHHHHhCCC-CcC----------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc--
Q 030489           27 IITYNTI--ICGYCSLNRLDEAVQLFEKLTCVQL-KPN----------SITFTILIDAFCKEGRMDDATMMFSKMLEK--   91 (176)
Q Consensus        27 ~~~~~~l--l~~~~~~~~~~~a~~~~~~m~~~~~-~~~----------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--   91 (176)
                      ..+|..+  ...+.+.|++++|++.|.+..+... .|+          ...|+.+..+|.+.|++++|.+.+++..+.  
T Consensus         7 a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           7 VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            3456655  5566788999999999998875311 121          356788889999999999999999887642  


Q ss_pred             ---CCCC-----cHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           92 ---GPKA-----NVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        92 ---~~~~-----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                         ...+     ....++.+..+|...|++++|+..|++..+
T Consensus        87 ~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          87 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               1111     123567788999999999999999988654

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.02  E-value=0.00033  Score=47.14  Aligned_cols=80  Identities=9%  Similarity=0.043  Sum_probs=37.0

Q ss_pred             hhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcC--CHHHHHHHHHHHHhcCCCCcHHHHHH-HHHHHHhcCCHHHHHHH
Q 030489           43 LDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEG--RMDDATMMFSKMLEKGPKANVVTYSC-LIDGYFKSQNMKSAFDV  119 (176)
Q Consensus        43 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~a~~~  119 (176)
                      +++|+.+++...+.... +...|..+..++...+  ++++|...++...+.... +...+.. ....+...+.+++|+..
T Consensus        89 ~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~  166 (334)
T d1dcea1          89 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAF  166 (334)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHH
Confidence            45555555555443211 3444444444443333  355555555555554332 3333332 23444445555555555


Q ss_pred             HHHHH
Q 030489          120 YEEMC  124 (176)
Q Consensus       120 ~~~m~  124 (176)
                      ++...
T Consensus       167 ~~~~i  171 (334)
T d1dcea1         167 TDSLI  171 (334)
T ss_dssp             HHTTT
T ss_pred             HHHHH
Confidence            55443

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.96  E-value=0.00016  Score=39.55  Aligned_cols=77  Identities=14%  Similarity=0.046  Sum_probs=57.7

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCC-----CCc-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQ-----LKP-NSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVT   99 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-----~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   99 (176)
                      +...+..+...+.+.|++++|+..|++..+..     ..+ ...+++.|..++.+.|++++|...+++..+..+. +..+
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~-~~~a   82 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE-HQRA   82 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcC-CHHH
Confidence            45556678888899999999999998776431     111 2456788889999999999999999999888655 5555


Q ss_pred             HHHH
Q 030489          100 YSCL  103 (176)
Q Consensus       100 ~~~l  103 (176)
                      ++.+
T Consensus        83 ~~Nl   86 (95)
T d1tjca_          83 NGNL   86 (95)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5554

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.88  E-value=0.00015  Score=43.48  Aligned_cols=88  Identities=19%  Similarity=0.150  Sum_probs=67.3

Q ss_pred             hhhCChhHHHHHHHHHhhCCC-Cc----------cHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-----CCCcC-----
Q 030489            3 IKECHLDAALKLFGQLTDRGL-EP----------DIITYNTIICGYCSLNRLDEAVQLFEKLTCV-----QLKPN-----   61 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~-~~----------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~~~~-----   61 (176)
                      .+.|++++|+..|++..+... .|          ....|+.+..+|.+.|++++|+..+++....     ...++     
T Consensus        20 ~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   99 (156)
T d2hr2a1          20 LVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLW   99 (156)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchh
Confidence            467999999999999875321 11          2467889999999999999999999887642     11111     


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 030489           62 SITFTILIDAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        62 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   90 (176)
                      ...++.+..+|...|++++|...|++..+
T Consensus       100 ~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1         100 ISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            22466778999999999999999998764

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.80  E-value=1.2e-05  Score=52.86  Aligned_cols=110  Identities=13%  Similarity=0.023  Sum_probs=76.0

Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHH
Q 030489           37 YCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSA  116 (176)
Q Consensus        37 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  116 (176)
                      ..+.|++++|+..+++..+... -|...+..+...++..|++++|.+.|+...+..+. +...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~P-~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~-~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhccccHHH
Confidence            4578999999999999988753 37889999999999999999999999999987543 555665555555444443332


Q ss_pred             HHHHHHHHHCCCCCCCC-------------CChHHHHHHHHHHHHC
Q 030489          117 FDVYEEMCENNISPNIA-------------GRPTEAMQLYDSMLRN  149 (176)
Q Consensus       117 ~~~~~~m~~~~~~~~~~-------------~~~~~a~~~~~~m~~~  149 (176)
                      ..-...-...+ .|+..             |+.++|.++++++.+.
T Consensus        84 ~~~~~~~~~~~-~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLG-ENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCC-SCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhccc-CchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            22111100000 11111             8999999999888754

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.55  E-value=0.00041  Score=37.82  Aligned_cols=66  Identities=11%  Similarity=0.072  Sum_probs=53.7

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC-----CCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 030489           61 NSITFTILIDAFCKEGRMDDATMMFSKMLEKG-----PKA-NVVTYSCLIDGYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus        61 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      +...+..+...+.+.|++++|...|++..+..     ..+ ...+++.+..+|.+.|++++|+..+++..+.
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            44556678889999999999999999887531     111 2567999999999999999999999998774

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.46  E-value=0.00013  Score=52.22  Aligned_cols=97  Identities=9%  Similarity=-0.089  Sum_probs=55.4

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +...+..+...+.+.|+.++|...+......  . ....+..+...+...|++++|...|.+..+..+. +..+|+.|..
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~-~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~  194 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--I-CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAI  194 (497)
T ss_dssp             ------------------------CCHHHHH--H-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--C-HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHH
Confidence            4555666666677777777777666554432  1 1245666778888889999999999988888654 7788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 030489          106 GYFKSQNMKSAFDVYEEMCEN  126 (176)
Q Consensus       106 ~~~~~g~~~~a~~~~~~m~~~  126 (176)
                      .|...|+..+|...|.+....
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~  215 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAV  215 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSS
T ss_pred             HHHHcCCHHHHHHHHHHHHhC
Confidence            999999999988888876654

>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=97.31  E-value=0.0041  Score=35.83  Aligned_cols=113  Identities=14%  Similarity=0.120  Sum_probs=79.4

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh----cCCHHH
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EGRMDD   80 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~   80 (176)
                      ..++++|.+.|++..+.|.+   ..+..|.  .....+.++|++++++..+.|   ++..+..|-..|..    ..+.++
T Consensus         6 ~kd~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~   77 (133)
T d1klxa_           6 KKDLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   77 (133)
T ss_dssp             HHHHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHH
Confidence            45789999999999888733   2233332  345668899999999988876   44455555555543    457899


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCC
Q 030489           81 ATMMFSKMLEKGPKANVVTYSCLIDGYFK----SQNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        81 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  128 (176)
                      |.++|+...+.|   ++.....|-..|..    ..+.++|..+|++..+.|.
T Consensus        78 A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          78 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            999999998876   44555566666655    3578888888887766553

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.16  E-value=0.0013  Score=46.92  Aligned_cols=103  Identities=11%  Similarity=-0.025  Sum_probs=73.1

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      +.|+.+.|...+......  . ...++..+...+...|++++|+..|++..+... -+..+|+.|...+...|+..+|..
T Consensus       132 ~~~~~~~A~~~~~~al~~--~-~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P-~~~~~~~~Lg~~~~~~~~~~~A~~  207 (497)
T d1ya0a1         132 KQTHTSAIVKPQSSSCSY--I-CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVP-SNGQPYNQLAILASSKGDHLTTIF  207 (497)
T ss_dssp             -----------CCHHHHH--H-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TBSHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hCCCHHHHHHHHHHHhCC--C-HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CchHHHHHHHHHHHHcCCHHHHHH
Confidence            445556666555544332  1 235778889999999999999999999887642 366889999999999999999999


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcC
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQ  111 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g  111 (176)
                      .|.+..... +|...++..|...+.+..
T Consensus       208 ~y~ral~~~-~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         208 YYCRSIAVK-FPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHHSSS-BCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCC-CCCHHHHHHHHHHHHHhh
Confidence            999998775 457888888888886643

>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=96.52  E-value=0.042  Score=35.04  Aligned_cols=84  Identities=18%  Similarity=0.157  Sum_probs=54.6

Q ss_pred             hhhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHh----CCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHH----h
Q 030489            3 IKECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFC----K   74 (176)
Q Consensus         3 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~----~   74 (176)
                      .+.+++++|++.|++..+.|   +...+..|-..|..    ..+...+...+......+.   ......+...+.    .
T Consensus        13 ~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~~l~~~~~~~~~~   86 (265)
T d1ouva_          13 YKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCHLLGNLYYSGQGV   86 (265)
T ss_dssp             HHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTSSS
T ss_pred             HHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhhcccccccccccc
Confidence            45789999999999998876   55666667777765    5678888888887776542   222333333322    2


Q ss_pred             cCCHHHHHHHHHHHHhcC
Q 030489           75 EGRMDDATMMFSKMLEKG   92 (176)
Q Consensus        75 ~~~~~~a~~~~~~~~~~~   92 (176)
                      ..+.+.|...++...+.|
T Consensus        87 ~~~~~~a~~~~~~a~~~g  104 (265)
T d1ouva_          87 SQNTNKALQYYSKACDLK  104 (265)
T ss_dssp             CCCHHHHHHHHHHHHHTT
T ss_pred             chhhHHHHHHHhhhhhhh
Confidence            345666666666655443

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.28  E-value=0.036  Score=31.64  Aligned_cols=121  Identities=14%  Similarity=0.219  Sum_probs=87.1

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-CC----------------CcChhhHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCV-QL----------------KPNSITFT   66 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~----------------~~~~~~~~   66 (176)
                      -.|..++..++..+....   .+..-||=++......-+-+-..++++..-+. .+                .-+...++
T Consensus        14 ldG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se~vd   90 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEHVN   90 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHHHH
T ss_pred             HhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHHHHH
Confidence            468888888988888764   24455555555555555555555555554321 11                11344556


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 030489           67 ILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCENNI  128 (176)
Q Consensus        67 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  128 (176)
                      ..++...++|.-++-.+++.++.+. -+|++...-.+..+|.+.|...++.+++.+..+.|.
T Consensus        91 lALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          91 KALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            7788899999999999999997774 467888899999999999999999999999988775

>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=96.16  E-value=0.071  Score=33.91  Aligned_cols=97  Identities=18%  Similarity=0.194  Sum_probs=71.1

Q ss_pred             cHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCcHHHHH
Q 030489           26 DIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EGRMDDATMMFSKMLEKGPKANVVTYS  101 (176)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  101 (176)
                      |+..+..|...+.+.+++++|++.|++..+.|   +...+..|-..|..    ..+...|...++...+.+   +.....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            45677788888889999999999999998876   55566666666665    668999999999888775   334444


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCC
Q 030489          102 CLIDGYFK----SQNMKSAFDVYEEMCENNI  128 (176)
Q Consensus       102 ~l~~~~~~----~g~~~~a~~~~~~m~~~~~  128 (176)
                      .+...+..    ..+.+.|...++.....|.
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~  105 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKY  105 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhh
Confidence            44444433    4577888888887766544

>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=96.07  E-value=0.046  Score=30.97  Aligned_cols=66  Identities=9%  Similarity=0.003  Sum_probs=36.7

Q ss_pred             cChhhHHHHHHHHHhcC---CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           60 PNSITFTILIDAFCKEG---RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        60 ~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      |++.|-....-+++++.   +.++++.+|+++.+.+..-....+-.|.-+|.+.|++++|.+.++.+.+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            33334333333444333   3456677777666554321234555666667777777777777776665

>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=95.76  E-value=0.068  Score=30.47  Aligned_cols=85  Identities=14%  Similarity=0.062  Sum_probs=66.9

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      .++++......+-.+-     .+...++..++....+|+-++-.++++.+.+.+ .|++...-.+..+|.+.|...++.+
T Consensus        68 ~C~Nlk~vv~C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~ne  141 (161)
T d1wy6a1          68 KCQNLKSVVECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATT  141 (161)
T ss_dssp             GCSCTHHHHHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhhcHHHHHHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHH
Confidence            4455555555554432     255667888999999999999999999987754 6788888899999999999999999


Q ss_pred             HHHHHHhcCCC
Q 030489           84 MFSKMLEKGPK   94 (176)
Q Consensus        84 ~~~~~~~~~~~   94 (176)
                      ++.+.-+.|.+
T Consensus       142 ll~~ACe~G~K  152 (161)
T d1wy6a1         142 LLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHTTCH
T ss_pred             HHHHHHHHhHH
Confidence            99999888864

>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=95.45  E-value=0.091  Score=29.82  Aligned_cols=83  Identities=13%  Similarity=0.041  Sum_probs=62.2

Q ss_pred             hCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHh----CCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh----cC
Q 030489            5 ECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCS----LNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK----EG   76 (176)
Q Consensus         5 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~   76 (176)
                      ..+.++|++.+++..+.|   ++.....|-..|..    ..+.++|+++|++..+.|   ++.....|-..|..    ..
T Consensus        36 ~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~  109 (133)
T d1klxa_          36 QINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVK  109 (133)
T ss_dssp             TSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             ccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCC
Confidence            457789999999998886   45566666666654    557899999999998876   34455556555554    46


Q ss_pred             CHHHHHHHHHHHHhcCC
Q 030489           77 RMDDATMMFSKMLEKGP   93 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~~~   93 (176)
                      +.++|.++|+...+.|.
T Consensus       110 d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_         110 NEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CHHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHCCC
Confidence            89999999999888774

>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=95.37  E-value=0.078  Score=28.55  Aligned_cols=63  Identities=14%  Similarity=0.143  Sum_probs=45.0

Q ss_pred             ChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 030489           42 RLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLID  105 (176)
Q Consensus        42 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  105 (176)
                      +.-++.+-++.+......|++....+.+.+|.+.+++.-|..+|+-.+... .++...|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHHH
Confidence            555677777777777888888888888888888888888888888777442 223445555443

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.10  E-value=0.23  Score=27.98  Aligned_cols=78  Identities=13%  Similarity=0.091  Sum_probs=56.3

Q ss_pred             HHHhhC-CCCccHHHHHHHHHHHHhCC---ChhHHHHHHHHHHhCCCCcCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 030489           16 GQLTDR-GLEPDIITYNTIICGYCSLN---RLDEAVQLFEKLTCVQLKPNS-ITFTILIDAFCKEGRMDDATMMFSKMLE   90 (176)
Q Consensus        16 ~~~~~~-~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~   90 (176)
                      ++..+. +..|+..+-.....++.+..   +.++++.++++..+.+ +.+. ..+..|.-+|.+.|++++|.+.++.+.+
T Consensus        23 ~q~~~e~~~~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          23 QQVVSEGGPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHTTGGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            344444 34566777777777777665   4678999999988653 2233 4566788889999999999999999998


Q ss_pred             cCCC
Q 030489           91 KGPK   94 (176)
Q Consensus        91 ~~~~   94 (176)
                      ..+.
T Consensus       102 ieP~  105 (124)
T d2pqrb1         102 HERN  105 (124)
T ss_dssp             HCTT
T ss_pred             cCCC
Confidence            7544

>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=93.78  E-value=0.55  Score=31.30  Aligned_cols=62  Identities=16%  Similarity=0.148  Sum_probs=44.3

Q ss_pred             CcChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 030489           59 KPNSITFTILIDAFCKEGRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEE  122 (176)
Q Consensus        59 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  122 (176)
                      ..+......++..|-..|.+++...+++...... ..+...++.++..|++.+ .++.++.++.
T Consensus        96 ~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~kl~e~l~~  157 (336)
T d1b89a_          96 VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLEL  157 (336)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHHHHHHHHh
Confidence            3455556678888888899999898888876543 457778889999998864 4554444443

>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=93.66  E-value=0.59  Score=31.18  Aligned_cols=101  Identities=17%  Similarity=0.131  Sum_probs=50.7

Q ss_pred             hhCChhHHHHHHHHHhhCCCCccHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCHHHHHH
Q 030489            4 KECHLDAALKLFGQLTDRGLEPDIITYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRMDDATM   83 (176)
Q Consensus         4 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   83 (176)
                      +.|.++.|..+|..+.         -|..++..+.+.+++..|.++....      -+..+|..+...+.+.....-+  
T Consensus        26 ~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~~la--   88 (336)
T d1b89a_          26 DEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLA--   88 (336)
T ss_dssp             ---CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHH--
T ss_pred             HCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHHHHH--
Confidence            4455555555554332         1344555555666666665555432      1444565556665555544332  


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 030489           84 MFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMC  124 (176)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  124 (176)
                         ++.......+......++..|-..|.+++...+++...
T Consensus        89 ---~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~  126 (336)
T d1b89a_          89 ---QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAAL  126 (336)
T ss_dssp             ---HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             ---HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence               12222233344455566666666666666666666543

>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=92.57  E-value=0.37  Score=25.87  Aligned_cols=49  Identities=6%  Similarity=0.013  Sum_probs=44.0

Q ss_pred             CHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 030489           77 RMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNMKSAFDVYEEMCE  125 (176)
Q Consensus        77 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  125 (176)
                      +.-++.+-+..+...+..|++.+..+.+.+|.+.+++.-|.++++-++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            5556778888888889999999999999999999999999999998864

>d1mzba_ a.4.5.42 (A:) Ferric uptake regulation protein, FUR {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: FUR-like
domain: Ferric uptake regulation protein, FUR
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=91.69  E-value=0.6  Score=26.42  Aligned_cols=61  Identities=18%  Similarity=0.156  Sum_probs=38.5

Q ss_pred             HHhhCCCCccHHHHHHHHHHHHhC-CChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCH
Q 030489           17 QLTDRGLEPDIITYNTIICGYCSL-NRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM   78 (176)
Q Consensus        17 ~~~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   78 (176)
                      ++++.|++++. .-..++.++.+. +..-.|.++++.+.+.+..++..|....++.+...|-+
T Consensus         6 ~Lr~~GlR~T~-qR~~Il~~L~~~~~~h~sa~ei~~~l~~~~~~i~~aTVYR~L~~l~e~gli   67 (134)
T d1mzba_           6 ELRKAGLKVTL-PRVKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLV   67 (134)
T ss_dssp             HHHHTTCCCCH-HHHHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHHcCCCCCH-HHHHHHHHHHhCCCCCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHhccEE
Confidence            35667777655 334566666555 34667777777777777666777666666666665543

>d1u9pa1 a.43.1.1 (A:72-107) Arc repressor {Salmonella bacteriophage P22 [TaxId: 10754]}

class: All alpha proteins
fold: Ribbon-helix-helix
superfamily: Ribbon-helix-helix
family: Arc/Mnt-like phage repressors
domain: Arc repressor
species: Salmonella bacteriophage P22 [TaxId: 10754]

Probab=87.05  E-value=0.52  Score=19.12  Aligned_cols=34  Identities=12%  Similarity=0.142  Sum_probs=26.5

Q ss_pred             HHHHHHHHHH-HCCCCCcHHHHHHHHHHhhcccCc
Q 030489          138 EAMQLYDSML-RNGIMPDGLLLSTLADYNLQSSGS  171 (176)
Q Consensus       138 ~a~~~~~~m~-~~g~~p~~~~~~~l~~~~~~~g~~  171 (176)
                      +.+.+.++.- +.|...+...|..++..+-+.|++
T Consensus         2 evldlvrkvaeeng~s~ns~iy~~vmes~kkegri   36 (36)
T d1u9pa1           2 EVLDLVRKVAEENGRSVNSEIYQRVMESFKKEGRI   36 (36)
T ss_dssp             HHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCC
T ss_pred             cHHHHHHHHHHHcCcchhHHHHHHHHHHHHHccCC
Confidence            3456666665 678889999999999999888863

>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=84.99  E-value=1.9  Score=26.06  Aligned_cols=49  Identities=8%  Similarity=0.121  Sum_probs=29.8

Q ss_pred             hhHHHHHHHHHhhCCCCccH--HHH-----HHHHHHHHhCCChhHHHHHHHHHHhC
Q 030489            8 LDAALKLFGQLTDRGLEPDI--ITY-----NTIICGYCSLNRLDEAVQLFEKLTCV   56 (176)
Q Consensus         8 ~~~a~~~~~~~~~~~~~~~~--~~~-----~~ll~~~~~~~~~~~a~~~~~~m~~~   56 (176)
                      ++.|+.+|+.+.+....|+.  ..-     ...+-.|.+.|.+++|.+++++....
T Consensus        87 LESAl~v~~~I~~E~~~~~~l~e~i~~lik~qaV~VCmekg~Fk~A~eil~r~f~~  142 (203)
T d1h6pa_          87 LESAINVLEMIKTEFTLTEAVVESSRKLVKEAAVIICIKNKEFEKASKILKKHMSK  142 (203)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHhcC
Confidence            46788888877765434331  111     23445677888888888888776653

>d2f6ma1 a.2.17.1 (A:322-385) Vacuolar protein sorting-associated protein 23, VPS23 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Endosomal sorting complex assembly domain
family: VPS23 C-terminal domain
domain: Vacuolar protein sorting-associated protein 23, VPS23
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.03  E-value=1.2  Score=21.69  Aligned_cols=45  Identities=9%  Similarity=0.011  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHh
Q 030489           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCK   74 (176)
Q Consensus        29 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   74 (176)
                      .+|.++..+++..-.+.++.++.+..+.|.. +..+|---.+.+++
T Consensus         3 a~nQl~~l~Aed~AieDaiy~L~~aL~~G~I-~~d~ylK~vR~LaR   47 (64)
T d2f6ma1           3 GLNQLYNLVAQDYALTDTIEALSRMLHRGTI-PLDTFVKQGRELAR   47 (64)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTSS-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCc-CHHHHHHHHHHHHH
Confidence            4566666666666666666666666666643 55556555555544

>d1mzba_ a.4.5.42 (A:) Ferric uptake regulation protein, FUR {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: FUR-like
domain: Ferric uptake regulation protein, FUR
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=82.66  E-value=2.6  Score=23.57  Aligned_cols=61  Identities=13%  Similarity=0.142  Sum_probs=46.8

Q ss_pred             HHHhCCCCcChhhHHHHHHHHHhc-CCHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 030489           52 KLTCVQLKPNSITFTILIDAFCKE-GRMDDATMMFSKMLEKGPKANVVTYSCLIDGYFKSQNM  113 (176)
Q Consensus        52 ~m~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  113 (176)
                      ++.+.|++++.. -..++..+.+. +.+-.|.++++.+.+.+..++..|.-.-++.+.+.|-.
T Consensus         6 ~Lr~~GlR~T~q-R~~Il~~L~~~~~~h~sa~ei~~~l~~~~~~i~~aTVYR~L~~l~e~gli   67 (134)
T d1mzba_           6 ELRKAGLKVTLP-RVKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLV   67 (134)
T ss_dssp             HHHHTTCCCCHH-HHHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHHcCCCCCHH-HHHHHHHHHhCCCCCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHhccEE
Confidence            477889987763 44567777665 45788999999999998888888877777777777643

>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=81.66  E-value=2.9  Score=23.37  Aligned_cols=65  Identities=8%  Similarity=0.195  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCcChhhHHHHHHHHHhcCCH--HHHHHHHHHHHhcCCC
Q 030489           29 TYNTIICGYCSLNRLDEAVQLFEKLTCVQLKPNSITFTILIDAFCKEGRM--DDATMMFSKMLEKGPK   94 (176)
Q Consensus        29 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~--~~a~~~~~~~~~~~~~   94 (176)
                      -...++.-|...++.++|...++++...... ...++..+..+.-+.+.-  +.+.+++..+...|+-
T Consensus         9 k~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~-~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~i   75 (129)
T d2nsza1           9 EIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTI   75 (129)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCchhh-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCC
Confidence            3567777777888888888888776532211 233334444444444443  2345677777666544